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

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences"	4783
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences"	4552
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4581
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4533
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4463
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 lconway

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

raw results

Summary

Package: biodbChebi

Version: 1.13.0

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_1.13.0.tar.gz

StartedAt: 2025-03-25 19:44:36 -0400 (Tue, 25 Mar 2025)

EndedAt: 2025-03-25 19:46:23 -0400 (Tue, 25 Mar 2025)

EllapsedTime: 107.8 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_1.13.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2025-03-02 r87868)
* 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 ‘1.13.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.13.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"
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 [2025-03-25 19:45:39.540][biodb::testContext]
biodb.INFO [2025-03-25 19:45:39.544][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 19:45:39.546][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-25 19:45:39.547][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 19:45:39.549][biodb::testContext]
biodb.INFO [2025-03-25 19:45:39.557][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-25 19:45:39.559][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-25 19:45:39.569][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:45:39.570][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-25 19:45:39.572][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-25 19:45:39.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.577][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-25 19:45:39.601][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-25 19:45:39.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.606][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-25 19:45:39.607][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-25 19:45:39.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.612][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-25 19:45:39.613][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-25 19:45:39.613][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-25 19:45:39.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.618][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-25 19:45:39.619][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-25 19:45:39.621][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-25 19:45:39.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.626][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-25 19:45:39.627][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-25 19:45:39.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.632][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-25 19:45:39.633][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-25 19:45:39.634][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-25 19:45:39.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.639][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-25 19:45:39.641][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-25 19:45:39.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.646][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-25 19:45:39.647][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-25 19:45:39.648][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-25 19:45:39.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.653][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-25 19:45:39.654][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-25 19:45:39.655][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-25 19:45:39.656][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-25 19:45:39.658][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-25 19:45:39.659][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-25 19:45:39.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.664][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-25 19:45:39.665][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-25 19:45:39.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.668][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-25 19:45:39.670][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-25 19:45:39.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.674][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-25 19:45:39.675][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-25 19:45:39.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.679][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-25 19:45:39.680][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-25 19:45:39.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.683][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[2025-03-25 19:45:39.684][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-25 19:45:39.686][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-25 19:45:39.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.689][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-25 19:45:39.690][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-25 19:45:39.716][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-25 19:45:39.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.721][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-25 19:45:39.722][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-25 19:45:39.723][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-25 19:45:39.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.731][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-25 19:45:39.776][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.803][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-25 19:45:39.805][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.806][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:45:39.808][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.809][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.810][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.811][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.812][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 19:45:39.813][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:45:39.814][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.815][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-25 19:45:39.816][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:45:39.817][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.818][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.820][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:45:39.820][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:45:39.820][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:45:39.820][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 19:45:39.820][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 19:45:39.821][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:45:39.822][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:45:39.823][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:45:39.824][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:45:39.826][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:45:39.826][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:45:39.827][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.829][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.830][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:45:39.831][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:45:39.832][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.834][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.835][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-25 19:45:39.837][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.839][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 19:45:39.840][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.841][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:45:39.842][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.843][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.844][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.845][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.847][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 19:45:39.849][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:45:39.852][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.853][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-25 19:45:39.856][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:45:39.857][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.858][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.859][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:45:39.859][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:45:39.859][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:45:39.859][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 19:45:39.859][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 19:45:39.861][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:45:39.862][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:45:39.863][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:45:39.863][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:45:39.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:45:39.865][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:45:39.866][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.867][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.868][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:45:39.869][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:45:39.870][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.872][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.873][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-25 19:45:39.875][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.876][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-25 19:45:39.878][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.879][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:45:39.880][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.881][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.883][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.884][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.885][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 19:45:39.887][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:45:39.888][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.889][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-25 19:45:39.890][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:45:39.891][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.892][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.893][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.895][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:45:39.896][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:45:39.897][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:45:39.898][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:45:39.899][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:45:39.900][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:45:39.901][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.902][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.903][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:45:39.904][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:45:39.906][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.907][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.908][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-25 19:45:39.910][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.912][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 19:45:39.914][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.915][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:45:39.916][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.917][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.919][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.920][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.921][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 19:45:39.922][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:45:39.923][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.924][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-25 19:45:39.925][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:45:39.926][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.928][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:39.929][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.930][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:45:39.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:45:39.932][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:45:39.933][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:45:39.934][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:45:39.935][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:45:39.937][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:45:39.938][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.940][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:45:39.941][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:45:39.942][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:39.943][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:45:39.948][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:45:39.949][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:39.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:39.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.956][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[2025-03-25 19:45:39.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:39.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:39.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.961][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[2025-03-25 19:45:39.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:39.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:39.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:39.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:39.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:39.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:39.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:39.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:39.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:39.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:39.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.987][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[2025-03-25 19:45:39.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:39.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:39.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.992][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[2025-03-25 19:45:39.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:39.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:39.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:39.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:39.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:39.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.045][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[2025-03-25 19:45:40.046][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-25 19:45:40.051][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-25 19:45:40.053][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-25 19:45:40.054][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-25 19:45:40.056][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-25 19:45:40.057][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-25 19:45:40.059][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-25 19:45:40.061][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-25 19:45:40.063][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-25 19:45:40.065][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-25 19:45:40.066][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 19:45:40.068][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-25 19:45:40.070][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-25 19:45:40.071][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-25 19:45:40.073][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-25 19:45:40.075][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-25 19:45:40.076][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-25 19:45:40.078][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-25 19:45:40.080][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-25 19:45:40.082][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-25 19:45:40.083][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-25 19:45:40.084][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-25 19:45:40.086][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-25 19:45:40.088][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-25 19:45:40.090][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-25 19:45:40.092][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-25 19:45:40.093][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-25 19:45:40.095][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-25 19:45:40.097][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-25 19:45:40.099][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-25 19:45:40.101][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-25 19:45:40.102][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-25 19:45:40.104][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-25 19:45:40.106][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-25 19:45:40.107][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-25 19:45:40.109][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-25 19:45:40.111][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-25 19:45:40.113][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-25 19:45:40.114][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-25 19:45:40.116][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-25 19:45:40.117][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-25 19:45:40.119][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-25 19:45:40.120][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-25 19:45:40.122][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-25 19:45:40.124][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-25 19:45:40.125][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-25 19:45:40.127][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-25 19:45:40.128][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-25 19:45:40.130][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-25 19:45:40.131][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-25 19:45:40.133][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-25 19:45:40.134][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-25 19:45:40.136][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-25 19:45:40.137][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-25 19:45:40.138][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-25 19:45:40.139][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-25 19:45:40.141][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-25 19:45:40.142][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-25 19:45:40.144][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-25 19:45:40.146][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-25 19:45:40.147][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-25 19:45:40.149][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-25 19:45:40.151][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-25 19:45:40.153][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-25 19:45:40.155][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-25 19:45:40.157][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-25 19:45:40.158][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-25 19:45:40.159][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-25 19:45:40.161][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-25 19:45:40.162][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-25 19:45:40.164][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-25 19:45:40.165][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-25 19:45:40.166][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-25 19:45:40.168][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-25 19:45:40.169][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-25 19:45:40.171][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-25 19:45:40.172][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-25 19:45:40.173][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-25 19:45:40.175][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-25 19:45:40.176][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-25 19:45:40.177][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-25 19:45:40.179][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-25 19:45:40.180][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-25 19:45:40.188][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-25 19:45:40.190][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-25 19:45:40.194][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:45:40.195][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.197][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.255][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.DEBUG[2025-03-25 19:45:40.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.262][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[2025-03-25 19:45:40.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:45:40.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:40.337][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-25 19:45:40.347][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-25 19:45:40.349][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:40.350][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-25 19:45:40.352][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:40.353][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:45:40.354][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:40.356][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:45:40.357][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:40.358][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-25 19:45:40.360][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-25 19:45:40.361][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:45:40.362][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:40.363][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-25 19:45:40.363][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:45:40.364][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-25 19:45:40.364][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-25 19:45:40.364][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-25 19:45:40.364][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-25 19:45:40.364][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-25 19:45:40.364][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-25 19:45:40.364][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-25 19:45:40.364][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-25 19:45:40.364][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-25 19:45:40.364][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-25 19:45:40.364][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-25 19:45:40.365][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-25 19:45:40.366][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:45:40.366][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:45:40.366][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:45:40.367][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-25 19:45:40.368][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:45:40.369][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:45:40.370][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:45:40.370][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:45:40.371][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:45:40.372][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:45:40.373][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:45:40.373][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-25 19:45:40.374][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:45:40.376][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:45:40.377][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-25 19:45:40.378][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-25 19:45:40.378][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-25 19:45:40.383][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-25 19:45:40.385][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 19:45:40.387][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-25 19:45:40.389][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-25 19:45:40.391][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-25 19:45:40.393][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-25 19:45:40.421][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-25 19:45:40.423][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-25 19:45:40.427][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-25 19:45:40.432][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-25 19:45:40.471][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 19:45:40.472][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 19:45:40.474][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-25 19:45:40.476][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-25 19:45:40.486][biodb::testThat]
biodb.INFO [2025-03-25 19:45:40.487][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-03-25 19:45:40.488][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:45:40.489][biodb::testThat]
biodb.TRACE[2025-03-25 19:45:40.494][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[2025-03-25 19:45:40.496][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:40.500][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:40.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:40.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:40.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:40.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:40.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:40.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:40.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:40.543][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.545][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.548][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.573][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:40.574][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:40.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.576][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.612][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:40.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:40.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.618][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:40.619][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:40.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.621][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.623][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:40.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:40.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.628][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:40.629][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:40.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.632][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.633][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:40.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:40.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.638][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:40.640][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:40.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.642][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:40.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.650][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:40.651][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:40.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.653][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.655][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:40.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:40.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.660][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:40.662][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:40.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.664][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.666][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:40.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:40.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.671][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:40.672][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:40.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.675][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:40.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:40.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.682][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:40.683][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:40.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.685][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.698][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:40.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:40.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.704][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:40.705][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:40.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.707][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.708][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:40.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:40.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.713][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:40.714][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:40.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.717][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.718][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:40.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:40.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:40.813][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-03-25 19:45:40.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:40.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:40.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:40.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:40.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:40.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:40.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.867][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:40.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:40.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:40.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:40.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:40.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:40.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.881][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 19:45:40.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 19:45:40.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.886][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 19:45:40.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 19:45:40.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.891][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-25 19:45:40.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-25 19:45:40.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.896][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-25 19:45:40.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-25 19:45:40.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:40.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:40.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:40.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:40.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:40.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.027][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.029][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.031][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.073][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.074][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.076][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.094][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:41.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:41.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.099][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:41.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:41.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.104][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:41.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:41.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.109][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:41.110][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:41.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.113][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.114][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:41.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:41.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.130][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:41.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:41.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:41.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:41.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.141][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:41.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:41.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.147][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:41.148][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:41.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.150][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.152][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:41.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:41.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.185][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.187][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.189][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.222][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.224][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.226][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.243][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:41.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:41.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.248][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:41.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:41.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.253][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:41.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:41.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.258][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:41.260][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:41.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.263][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.272][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:41.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:41.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.289][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.295][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.300][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.306][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.307][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.310][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.311][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.329][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.335][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.341][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.346][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.347][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.350][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.351][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.369][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:41.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:41.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.376][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:41.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:41.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.381][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:41.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:41.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.386][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:41.388][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:41.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.390][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.391][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:41.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:41.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.409][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.427][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.428][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.431][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:41.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:41.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:41.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:41.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.461][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:41.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:41.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.466][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:41.468][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:41.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.470][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.472][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:41.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:41.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.496][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.498][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.501][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.509][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:41.510][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:41.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.513][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.521][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:41.522][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:41.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.525][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.533][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:41.535][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:41.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.538][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.546][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.548][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.551][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.559][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.561][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.564][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.572][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.573][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.576][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.583][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.585][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.588][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.595][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.597][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.600][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.608][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:41.610][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:41.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.612][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.619][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:41.620][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:41.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.623][ef$get] fields variable is a list.
biodb.INFO [2025-03-25 19:45:41.634][biodb::testThat]
biodb.INFO [2025-03-25 19:45:41.636][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-25 19:45:41.637][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:45:41.638][biodb::testThat]
biodb.DEBUG[2025-03-25 19:45:41.658][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-03-25 19:45:41.667][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:41.673][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-03-25 19:45:41.675][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:41.677][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-03-25 19:45:41.679][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:41.719][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:41.721][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:41.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:41.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:41.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:41.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:41.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:41.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:41.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:41.743][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.745][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.748][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.778][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:41.780][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:41.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.783][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.785][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:41.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:41.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.791][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:41.793][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:41.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.795][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.797][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:41.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:41.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.803][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:41.804][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:41.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.807][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.809][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:41.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:41.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.815][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.816][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.819][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:41.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.826][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.827][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.830][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.831][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:41.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.836][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:41.837][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.840][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.841][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:41.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:41.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.846][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.848][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.850][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:41.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.858][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:41.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:41.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.862][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.864][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:41.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:41.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.869][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:41.871][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.873][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:41.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:41.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.880][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:41.881][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:41.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.884][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.885][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:41.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:41.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:41.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:41.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:41.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:41.950][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-03-25 19:45:41.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-25 19:45:41.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-25 19:45:41.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-25 19:45:41.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-25 19:45:41.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:41.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-25 19:45:41.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-25 19:45:41.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-25 19:45:41.980][biodb::testThat]
biodb.INFO [2025-03-25 19:45:41.981][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-25 19:45:41.982][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:45:41.984][biodb::testThat]
biodb.TRACE[2025-03-25 19:45:41.988][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:41.990][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:41.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:41.992][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:41.994][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-03-25 19:45:42.031][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:42.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:42.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:42.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:42.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.043][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:42.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:42.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:42.052][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-03-25 19:45:42.058][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-25 19:45:42.086][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:45:42.118][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-25 19:45:42.120][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:42.123][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-25 19:45:42.156][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[2025-03-25 19:45:42.161][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:45:42.163][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-25 19:45:42.165][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:42.168][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-25 19:45:42.171][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-03-25 19:45:42.190][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:42.192][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:42.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.195][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.196][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:42.198][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:42.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.200][ef$get] fields variable is a list.
biodb.INFO [2025-03-25 19:45:42.206][biodb::testThat]
biodb.INFO [2025-03-25 19:45:42.208][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-03-25 19:45:42.209][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:45:42.211][biodb::testThat]
biodb.TRACE[2025-03-25 19:45:42.246][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:42.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:42.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.251][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:42.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:42.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:42.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:42.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:42.339][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[2025-03-25 19:45:42.344][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:45:42.346][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-25 19:45:42.348][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:42.349][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-03-25 19:45:42.375][biodb::testThat]
biodb.INFO [2025-03-25 19:45:42.376][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-03-25 19:45:42.378][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:45:42.379][biodb::testThat]
biodb.TRACE[2025-03-25 19:45:42.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:42.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:42.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:42.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:42.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.417][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:42.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:42.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:42.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:42.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:42.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:42.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:42.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:42.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.437][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 19:45:42.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 19:45:42.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.442][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 19:45:42.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 19:45:42.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.447][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-25 19:45:42.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-25 19:45:42.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.453][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-25 19:45:42.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-25 19:45:42.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:42.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:42.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.492][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:42.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:42.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.497][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:42.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:42.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:42.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:42.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:42.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:42.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:42.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:42.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.517][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 19:45:42.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 19:45:42.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.522][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 19:45:42.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 19:45:42.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.527][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-25 19:45:42.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-25 19:45:42.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:42.532][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-25 19:45:42.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-25 19:45:42.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:42.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-25 19:45:42.546][biodb::testThat]
biodb.INFO [2025-03-25 19:45:42.547][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-25 19:45:42.549][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:45:42.550][biodb::testThat]
biodb.INFO [2025-03-25 19:45:42.562][biodb::testThat]
biodb.INFO [2025-03-25 19:45:42.563][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-25 19:45:42.565][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:45:42.566][biodb::testThat]
biodb.INFO [2025-03-25 19:45:42.599][biodb::testThat]
biodb.INFO [2025-03-25 19:45:42.600][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-25 19:45:42.601][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:45:42.603][biodb::testThat]
biodb.DEBUG[2025-03-25 19:45:42.607][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-03-25 19:45:43.673][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-03-25 19:45:44.906][biodb::testThat]
biodb.INFO [2025-03-25 19:45:44.908][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-25 19:45:44.909][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:45:44.910][biodb::testThat]
biodb.DEBUG[2025-03-25 19:45:45.261][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[2025-03-25 19:45:45.614][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:45.616][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:45.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:45.619][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:45.620][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:45.621][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:45.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:45.623][ef$get] fields variable is a list.
biodb.INFO [2025-03-25 19:45:45.625][biodb::testThat]
biodb.INFO [2025-03-25 19:45:45.626][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-03-25 19:45:45.627][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:45:45.628][biodb::testThat]
biodb.TRACE[2025-03-25 19:45:45.642][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:45.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:45.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:45.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:45.662][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:45.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:45.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:45.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:45.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:45.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:45.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:45.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:45.767][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[2025-03-25 19:45:45.771][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:45:45.773][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-25 19:45:45.775][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:45.777][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-25 19:45:45.862][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[2025-03-25 19:45:45.867][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:45:45.869][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-25 19:45:45.871][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:45.873][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-03-25 19:45:45.893][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 19:45:45.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 19:45:45.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:45.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:45.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:45.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:45.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:45.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:45.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:45.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:45.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:45.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:45.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:45.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:45.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:45.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:45.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:45.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:45.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:45.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:45.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:45.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:45.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:45.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:45.950][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[2025-03-25 19:45:45.955][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:45:45.957][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-25 19:45:45.959][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:45.961][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-25 19:45:45.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:45.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:45.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:45.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:45.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:45.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:45.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:45.981][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-03-25 19:45:46.045][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:46.047][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-03-25 19:45:46.049][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 19:45:46.051][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 19:45:46.052][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:46.053][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:45:46.054][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-25 19:45:46.063][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-25 19:45:46.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:46.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:46.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:46.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:46.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:46.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:46.080][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[2025-03-25 19:45:46.082][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-03-25 19:45:46.086][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-25 19:45:46.087][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-25 19:45:46.088][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-03-25 19:45:46.425][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-03-25 19:45:47.017][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-25 19:45:47.019][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-03-25 19:45:47.038][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-03-25 19:45:47.042][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-03-25 19:45:47.043][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-25 19:45:47.045][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:47.047][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:47.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:47.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:47.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:47.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:47.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:47.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:47.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:47.066][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:47.067][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:47.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.070][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:47.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:47.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.077][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:47.078][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:47.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.080][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.082][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:47.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:47.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.087][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:47.089][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:47.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.091][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.093][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:47.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:47.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.099][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:47.101][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:47.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.103][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:47.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:47.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.110][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:47.111][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:47.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.114][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:47.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:47.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.136][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:47.137][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:47.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.140][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.141][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:47.143][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.145][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.147][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:47.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.152][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:47.154][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:47.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.156][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:47.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:47.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.164][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:47.165][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:47.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.168][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.169][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:47.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:47.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.175][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:47.176][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:47.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.179][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.180][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:47.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:47.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.185][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:47.187][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:47.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.189][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.191][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:47.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:47.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:47.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:47.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:47.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:47.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:47.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:47.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:47.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:47.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:47.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:47.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:47.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:47.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:47.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:47.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:47.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:47.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:47.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:47.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:47.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:47.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:47.247][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-03-25 19:45:47.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:47.285][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[2025-03-25 19:45:47.289][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:45:47.290][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-25 19:45:47.292][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:47.294][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-25 19:45:47.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:47.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:47.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:47.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:47.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:47.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:47.330][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[2025-03-25 19:45:47.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:47.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:47.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:47.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:47.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:47.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:47.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:47.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:47.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:47.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:47.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:47.364][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-03-25 19:45:47.366][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:47.368][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-03-25 19:45:47.369][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 19:45:47.371][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 19:45:47.372][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:47.374][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:45:47.375][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-25 19:45:47.376][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-25 19:45:47.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:47.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:47.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:47.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:47.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:47.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:47.415][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[2025-03-25 19:45:47.416][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-03-25 19:45:47.437][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-25 19:45:47.439][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-25 19:45:47.457][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-03-25 19:45:47.795][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-03-25 19:45:48.428][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-25 19:45:48.432][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-03-25 19:45:48.436][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-03-25 19:45:48.440][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-03-25 19:45:48.442][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-25 19:45:48.444][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:48.445][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:48.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:48.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:48.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:48.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:48.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:48.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:48.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:48.466][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:48.468][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:48.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.470][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:48.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:48.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.477][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:48.486][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:48.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.494][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.495][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:48.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:48.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.501][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:48.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:48.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.505][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.507][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:48.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:48.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.512][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:48.514][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:48.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.516][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:48.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:48.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.523][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:48.524][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:48.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.527][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:48.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:48.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.533][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:48.535][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:48.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.537][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.539][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:48.540][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.543][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.544][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:48.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.549][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:48.551][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:48.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.553][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:48.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:48.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.560][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:48.561][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:48.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.564][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:48.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:48.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.571][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:48.572][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:48.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.575][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.576][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:48.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:48.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.582][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:48.583][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:48.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.585][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.587][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:48.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:48.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:48.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:48.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:48.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:48.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:48.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:48.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:48.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:48.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:48.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:48.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:48.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:48.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:48.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:48.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:48.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:48.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:48.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:48.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:48.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:48.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:48.651][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-03-25 19:45:48.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:48.696][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[2025-03-25 19:45:48.700][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:45:48.702][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-25 19:45:48.704][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:48.706][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-25 19:45:48.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:48.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:48.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:48.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:48.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:48.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:48.724][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.TRACE[2025-03-25 19:45:48.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.732][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:48.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:48.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:48.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:48.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:48.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:48.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:48.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:48.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:48.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:48.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:48.758][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-03-25 19:45:48.794][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:48.797][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-03-25 19:45:48.800][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 19:45:48.802][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 19:45:48.803][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:48.804][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:45:48.806][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-25 19:45:48.807][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-25 19:45:48.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:48.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:48.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:48.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:48.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:48.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:48.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:48.828][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2025-03-25 19:45:48.831][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-25 19:45:48.833][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-25 19:45:48.835][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2025-03-25 19:45:49.173][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2025-03-25 19:45:49.508][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-25 19:45:49.511][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2025-03-25 19:45:49.516][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2025-03-25 19:45:49.520][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2025-03-25 19:45:49.522][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-25 19:45:49.524][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:49.526][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:49.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:49.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:49.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:49.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:49.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:49.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:49.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:49.546][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:49.547][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:49.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.550][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:49.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:49.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.557][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:49.558][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:49.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.560][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.562][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:49.564][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:49.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.566][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.567][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:49.569][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:49.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.571][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.573][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:49.575][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:49.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.577][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.579][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:49.580][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:49.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.582][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.584][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:49.585][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:49.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.588][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.589][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:49.590][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:49.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.592][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.593][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:49.594][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:49.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.596][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.598][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:49.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:49.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.602][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:49.616][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:49.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.619][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.621][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:49.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:49.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.627][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:49.629][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:49.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.631][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:49.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:49.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:49.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:49.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:49.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:49.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:49.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:49.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:49.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:49.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:49.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:49.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:49.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:49.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:49.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:49.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:49.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:49.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:49.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:49.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:49.686][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-03-25 19:45:49.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:49.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:49.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:49.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:49.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:49.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:49.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:49.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:49.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:49.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:49.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:49.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:49.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:49.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:49.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:49.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:49.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:49.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:49.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:49.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:49.733][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-03-25 19:45:49.734][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:49.736][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-03-25 19:45:49.738][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 19:45:49.739][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 19:45:49.740][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:49.742][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:45:49.743][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-25 19:45:49.744][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-25 19:45:49.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:49.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:49.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:49.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:49.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:49.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:49.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:49.772][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2025-03-25 19:45:49.776][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-25 19:45:49.777][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-25 19:45:49.779][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2025-03-25 19:45:50.284][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2025-03-25 19:45:50.620][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-25 19:45:50.623][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2025-03-25 19:45:50.629][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2025-03-25 19:45:50.632][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2025-03-25 19:45:50.635][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-25 19:45:50.636][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:50.638][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:50.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:50.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:50.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:50.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:50.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:50.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:50.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:50.658][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:50.660][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:50.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.663][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:50.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:50.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.670][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:50.672][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:50.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.674][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.676][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:50.678][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:50.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.680][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.681][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:50.683][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:50.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.685][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.687][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:50.689][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:50.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.691][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.693][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:50.694][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:50.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.697][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.698][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:50.700][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:50.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.702][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.703][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:50.704][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:50.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.707][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.708][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:50.710][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:50.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.712][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.715][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:50.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:50.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.721][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:50.722][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:50.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.725][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.727][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:50.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:50.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.732][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:50.733][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:50.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.736][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:50.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:50.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:50.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:50.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:50.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:50.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:50.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:50.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:50.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:50.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:50.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:50.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:50.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:50.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:50.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:50.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:50.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:50.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:50.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:50.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:50.803][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-03-25 19:45:50.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:50.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:50.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:50.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:50.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:50.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:50.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:50.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:50.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:50.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:50.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:50.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:50.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:50.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:50.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:50.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:50.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:50.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:50.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:50.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:50.845][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-03-25 19:45:50.847][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:50.848][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-03-25 19:45:50.850][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 19:45:50.852][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 19:45:50.853][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:50.854][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:45:50.856][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-25 19:45:50.857][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-25 19:45:50.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:50.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:50.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:50.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:50.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:50.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:50.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:50.877][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2025-03-25 19:45:50.880][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-25 19:45:50.890][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-25 19:45:50.892][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2025-03-25 19:45:51.228][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2025-03-25 19:45:51.561][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-25 19:45:51.564][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2025-03-25 19:45:51.570][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2025-03-25 19:45:51.574][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2025-03-25 19:45:51.576][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-25 19:45:51.578][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:51.579][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:51.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:51.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:51.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:51.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:51.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:51.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:51.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:51.598][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:51.600][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:51.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.602][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:51.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:51.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.609][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:51.610][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:51.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.612][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.614][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:51.616][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:51.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.618][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.620][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:51.621][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:51.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.624][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.626][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:51.627][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:51.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.629][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.630][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:51.632][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:51.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.634][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.635][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:51.637][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:51.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.639][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.640][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:51.641][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:51.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.643][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.645][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:51.646][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:51.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.649][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:51.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:51.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.656][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:51.657][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:51.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.659][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.660][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:51.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:51.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.666][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:51.667][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:51.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.670][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:51.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:51.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:51.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:51.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:51.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:51.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:51.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:51.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:51.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:51.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:51.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:51.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:51.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:51.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:51.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:51.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:51.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:51.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:51.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:51.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:51.734][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-03-25 19:45:51.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:51.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:51.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:51.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:51.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:51.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:51.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:51.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:51.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:51.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:51.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:51.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:51.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:51.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:51.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:51.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:51.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:51.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:51.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:51.774][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[2025-03-25 19:45:51.776][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-03-25 19:45:51.777][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:51.779][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-03-25 19:45:51.780][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 19:45:51.782][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 19:45:51.783][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:51.785][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:45:51.786][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-25 19:45:51.787][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-25 19:45:51.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:51.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:51.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:51.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:51.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:51.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:51.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:51.803][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2025-03-25 19:45:51.807][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-25 19:45:51.808][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-25 19:45:51.810][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2025-03-25 19:45:52.189][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2025-03-25 19:45:52.551][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-25 19:45:52.554][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2025-03-25 19:45:52.568][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2025-03-25 19:45:52.572][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2025-03-25 19:45:52.575][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-25 19:45:52.577][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:52.578][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:52.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:52.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:52.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:52.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:52.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:52.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:52.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:52.596][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:52.598][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:52.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.600][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:52.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:52.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.606][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:52.608][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:52.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.610][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.612][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:52.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:52.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.617][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:52.619][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:52.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.621][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.623][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:52.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:52.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.628][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:52.630][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:52.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.632][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:52.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:52.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.639][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:52.640][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:52.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.643][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.645][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:52.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:52.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.649][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:52.650][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:52.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.653][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.654][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:52.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:52.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.660][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:52.661][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:52.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.664][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.665][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:52.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:52.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.671][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:52.672][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:52.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.674][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:52.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:52.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.681][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:52.682][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:52.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.684][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:52.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:52.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.693][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:52.694][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:52.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.703][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.705][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:52.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:52.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.710][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:52.712][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:52.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.714][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:52.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:52.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:52.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:52.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:52.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:52.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:52.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:52.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:52.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:52.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:52.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:52.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:52.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:52.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:52.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:52.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:52.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:52.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:52.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:52.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:52.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:52.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:52.770][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-03-25 19:45:52.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:52.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:52.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:52.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:52.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:52.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:52.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:52.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:52.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:52.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:52.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:52.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:52.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:52.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:52.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:52.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:52.801][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-03-25 19:45:52.803][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:52.805][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-03-25 19:45:52.807][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 19:45:52.808][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 19:45:52.810][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:52.811][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:45:52.813][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-25 19:45:52.814][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-25 19:45:52.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:52.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:52.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:52.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:52.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:52.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:52.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:52.839][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2025-03-25 19:45:52.843][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-25 19:45:52.844][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-25 19:45:52.846][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2025-03-25 19:45:53.282][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2025-03-25 19:45:53.624][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-25 19:45:53.627][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2025-03-25 19:45:53.632][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2025-03-25 19:45:53.635][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2025-03-25 19:45:53.637][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-25 19:45:53.639][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:53.641][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:53.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:53.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:53.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:53.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:53.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:53.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:53.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:53.660][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:53.661][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:53.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.663][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:53.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:53.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.670][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:53.671][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:53.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.674][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.676][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:53.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:53.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.681][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:53.682][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:53.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.685][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.687][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:53.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:53.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.692][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:53.693][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:53.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.696][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:53.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:53.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.702][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:53.703][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:53.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.705][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.707][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:53.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:53.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.712][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:53.713][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:53.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.715][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.717][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:53.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:53.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.722][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:53.723][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:53.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.725][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.727][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:53.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:53.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.732][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:53.733][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:53.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.735][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:53.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:53.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.751][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:53.752][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:53.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.754][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:53.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:53.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.761][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:53.763][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:53.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.765][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.766][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:53.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:53.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.771][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:53.772][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:53.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.774][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.776][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:53.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:53.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:53.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:53.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:53.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:53.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:53.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:53.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:53.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:53.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:53.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:53.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:53.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:53.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:53.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:53.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:53.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:53.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:53.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:53.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:53.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:53.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:53.826][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-03-25 19:45:53.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:53.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:53.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:53.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:53.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:53.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:53.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:53.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:53.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:53.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:53.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:53.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:53.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:53.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:53.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:53.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:53.855][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-03-25 19:45:53.857][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:53.858][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-03-25 19:45:53.866][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 19:45:53.868][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 19:45:53.870][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:53.871][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:45:53.872][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-25 19:45:53.873][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-25 19:45:53.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:53.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:53.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:53.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:53.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:53.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:53.887][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[2025-03-25 19:45:53.889][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2025-03-25 19:45:53.892][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-25 19:45:53.894][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-25 19:45:53.896][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2025-03-25 19:45:54.228][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2025-03-25 19:45:54.564][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-25 19:45:54.567][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2025-03-25 19:45:54.572][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2025-03-25 19:45:54.576][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2025-03-25 19:45:54.578][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-25 19:45:54.580][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:54.582][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:54.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:54.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:54.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:54.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:54.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:54.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:54.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:54.598][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:54.599][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:54.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.602][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:54.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:54.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.608][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:54.609][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:54.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.611][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.612][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:54.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:54.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.617][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:54.617][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:54.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.620][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.621][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:54.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:54.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.626][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:54.628][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:54.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.630][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.632][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:54.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:54.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.637][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:54.639][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:54.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.641][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:54.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:54.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.647][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:54.649][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:54.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.651][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.653][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:54.659][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:54.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.666][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.668][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:54.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:54.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.674][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:54.675][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:54.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.677][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:54.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:54.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.683][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:54.684][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:54.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.686][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:54.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:54.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.692][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:54.693][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:54.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.695][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.697][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:54.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:54.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.702][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:54.703][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:54.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.706][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.707][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:54.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:54.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:54.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:54.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:54.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:54.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:54.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:54.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:54.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:54.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:54.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:54.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:54.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:54.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:54.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:54.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:54.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:54.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:54.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:54.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:54.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:54.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:54.760][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-03-25 19:45:54.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:54.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:54.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:54.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:54.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:54.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:54.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:54.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:54.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:54.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:54.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:54.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:54.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:54.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:54.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:54.796][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[2025-03-25 19:45:54.797][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-03-25 19:45:54.798][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:54.801][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-03-25 19:45:54.802][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 19:45:54.803][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 19:45:54.805][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:54.806][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:45:54.807][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-25 19:45:54.809][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-25 19:45:54.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:54.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:54.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:54.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:54.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:54.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:54.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:54.827][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2025-03-25 19:45:54.831][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-25 19:45:54.832][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-25 19:45:54.834][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2025-03-25 19:45:55.167][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2025-03-25 19:45:55.506][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-25 19:45:55.508][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2025-03-25 19:45:55.514][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2025-03-25 19:45:55.517][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2025-03-25 19:45:55.519][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-25 19:45:55.520][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:55.521][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:55.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:55.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:55.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:55.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:55.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:55.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:55.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:55.539][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:55.541][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:55.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.543][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:55.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:55.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.548][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:55.549][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:55.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.551][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.552][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:55.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:55.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.558][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:55.559][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:55.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.561][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.563][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:55.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:55.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.568][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:55.569][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:55.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.570][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:55.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:55.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.576][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:55.577][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:55.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.591][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.593][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:55.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:55.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.598][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:55.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:55.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.602][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.604][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:55.606][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:55.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.608][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.610][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:55.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:55.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.614][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:55.615][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:55.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.618][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:55.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:55.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.623][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:55.624][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:55.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.626][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:55.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:55.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.632][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:55.633][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:55.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.635][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.637][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:55.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:55.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.641][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:55.643][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:55.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.644][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.646][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:55.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:55.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:55.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:55.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:55.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:55.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:55.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:55.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:55.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:55.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:55.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:55.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:55.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:55.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:55.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:55.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:55.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:55.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:55.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:55.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:55.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:55.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:55.692][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-03-25 19:45:55.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:55.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:55.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:55.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:55.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:55.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:55.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:55.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:55.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:55.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:55.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:55.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:55.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:55.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:55.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:55.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:55.731][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-03-25 19:45:55.732][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:55.734][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-03-25 19:45:55.735][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 19:45:55.737][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 19:45:55.738][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:55.740][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:45:55.741][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-25 19:45:55.742][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-25 19:45:55.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:55.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:55.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:55.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:55.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:55.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:55.760][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[2025-03-25 19:45:55.761][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2025-03-25 19:45:55.764][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-25 19:45:55.765][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-25 19:45:55.767][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2025-03-25 19:45:56.101][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2025-03-25 19:45:56.443][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-25 19:45:56.446][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2025-03-25 19:45:56.450][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2025-03-25 19:45:56.454][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2025-03-25 19:45:56.456][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-25 19:45:56.457][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:56.459][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:56.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:56.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:56.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:56.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:56.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:56.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:56.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:56.475][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.476][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.478][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.484][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:56.485][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:56.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.487][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.489][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:56.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:56.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.493][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:56.494][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:56.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.496][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.497][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:56.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:56.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.512][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:56.513][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:56.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.515][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:56.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:56.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.521][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.522][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.524][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.529][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:56.530][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:56.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.532][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.533][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:56.534][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.536][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.538][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:56.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.542][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.544][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.546][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.552][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:56.553][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:56.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.555][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.557][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:56.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:56.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.576][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:56.577][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:56.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.580][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.581][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:56.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:56.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.589][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:56.593][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:56.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.596][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.597][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:56.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:56.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:56.654][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-03-25 19:45:56.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:56.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:56.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:56.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:56.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:56.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:56.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:56.680][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[2025-03-25 19:45:56.682][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-03-25 19:45:56.683][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:56.685][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-03-25 19:45:56.686][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:56.688][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-03-25 19:45:56.690][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:56.691][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:56.692][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:56.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:56.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:56.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:56.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:56.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:56.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:56.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:56.710][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.711][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.713][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.720][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:56.721][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:56.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.723][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.724][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:56.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:56.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.729][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:56.730][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:56.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.732][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.733][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:56.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:56.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.738][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:56.739][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:56.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.740][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.742][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:56.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:56.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.746][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.747][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.749][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.761][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:56.763][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:56.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.765][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.767][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:56.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.769][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.770][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:56.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.776][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.777][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.779][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.785][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:56.786][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:56.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.788][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.789][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:56.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:56.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.793][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:56.794][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:56.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.796][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.797][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:56.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:56.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.801][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:56.802][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:56.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.804][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.805][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:56.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:56.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:56.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:56.854][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-03-25 19:45:56.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:56.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:56.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:56.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:56.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:56.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:56.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:56.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:56.889][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-03-25 19:45:56.890][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:56.892][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-03-25 19:45:56.894][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:56.896][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-03-25 19:45:56.898][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:56.899][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:56.900][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:56.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:56.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:56.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:56.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:56.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:56.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:56.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:56.917][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.918][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.921][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:56.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:56.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.927][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:56.928][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:56.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.930][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.932][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:56.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:56.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.936][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:56.937][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:56.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.939][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.940][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:56.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:56.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.945][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:56.947][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:56.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.949][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:56.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:56.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.955][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.956][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.958][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:56.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.964][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:56.965][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:56.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.967][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.968][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:56.970][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.972][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.974][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:56.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:56.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.978][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.980][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.982][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:56.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:56.995][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:56.997][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:56.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:56.999][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.001][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:57.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:57.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.005][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:57.005][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:57.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.007][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.009][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:57.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:57.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.013][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:57.014][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:57.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.016][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.018][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:57.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:57.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:57.173][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-03-25 19:45:57.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:57.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:57.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:57.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:57.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:57.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:57.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:57.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:57.204][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-03-25 19:45:57.205][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:57.207][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-03-25 19:45:57.215][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:57.217][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-03-25 19:45:57.219][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:57.220][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:57.222][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:57.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:57.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:57.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:57.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:57.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:57.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:57.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:57.238][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.239][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.242][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.247][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:57.248][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:57.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.250][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.251][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:57.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:57.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.256][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:57.257][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:57.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.259][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.261][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:57.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:57.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.265][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:57.266][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:57.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.268][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.269][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.270][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.272][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.273][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:57.274][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:57.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.276][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.277][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:57.278][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.280][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.281][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:57.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.286][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.287][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.289][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.296][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:57.298][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:57.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.300][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:57.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:57.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.306][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:57.307][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:57.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.309][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.311][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:57.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:57.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.326][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:57.328][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:57.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.331][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:57.455][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-03-25 19:45:57.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:57.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:57.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:57.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:57.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:57.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:57.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:57.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:57.483][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-03-25 19:45:57.484][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:57.486][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-03-25 19:45:57.487][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:57.489][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-03-25 19:45:57.490][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:57.492][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:57.493][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:57.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:57.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:57.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:57.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:57.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:57.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:57.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:57.508][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.509][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.511][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.516][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:57.518][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:57.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.519][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.521][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:57.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:57.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.532][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:57.533][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:57.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.536][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.537][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:57.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:57.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.542][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:57.543][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:57.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.546][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.548][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.549][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.552][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.553][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:57.554][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:57.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.557][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.558][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:57.560][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.562][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.564][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:57.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.569][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.570][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.572][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.578][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:57.579][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:57.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.582][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.584][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:57.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:57.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.589][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:57.590][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:57.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.593][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.594][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:57.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:57.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.598][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:57.599][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:57.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.601][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:57.658][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-03-25 19:45:57.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:57.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:57.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:57.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:57.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:57.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:57.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:57.685][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[2025-03-25 19:45:57.687][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-03-25 19:45:57.688][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:57.690][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-03-25 19:45:57.692][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:57.694][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-03-25 19:45:57.695][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:57.697][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:57.698][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:57.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:57.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:57.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:57.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:57.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:57.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:57.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:57.715][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.717][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.720][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.726][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:57.726][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:57.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.729][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.731][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:57.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:57.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.735][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:57.736][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:57.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.738][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.739][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:57.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:57.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.744][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:57.745][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:57.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.747][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:57.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:57.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.752][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.753][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.755][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.757][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.761][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:57.762][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:57.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.764][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.766][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:57.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.777][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.779][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:57.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.784][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.785][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.787][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.792][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:57.793][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:57.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.795][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.797][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:57.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:57.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.801][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:57.802][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:57.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.804][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.806][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:57.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:57.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.811][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:57.812][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:57.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.814][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.816][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:57.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:57.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:57.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:57.867][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-03-25 19:45:57.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:57.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:57.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:57.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:57.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:57.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:57.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:57.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:57.903][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-03-25 19:45:57.904][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:57.906][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-03-25 19:45:57.907][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:57.909][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-03-25 19:45:57.910][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:57.911][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:57.912][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:57.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:57.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:57.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:57.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:57.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:57.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:57.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:57.928][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.930][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.932][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:57.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:57.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.939][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:57.940][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:57.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.941][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.942][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:57.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:57.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.947][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:57.948][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:57.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.951][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.952][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:57.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:57.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.958][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:57.959][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:57.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.961][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:57.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:57.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.967][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.968][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.970][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:57.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.977][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:57.979][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:57.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.982][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.983][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:57.984][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.987][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.988][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:57.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:57.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.993][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.994][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:57.996][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:57.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:57.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.003][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:58.004][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:58.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.007][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:58.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:58.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.021][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:58.023][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:58.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.025][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.026][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:58.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:58.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.030][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:58.032][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:58.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.034][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.035][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:58.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:58.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:58.089][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-03-25 19:45:58.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:58.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:58.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:58.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:58.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:58.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:58.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:58.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:58.115][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-03-25 19:45:58.116][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:58.118][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-03-25 19:45:58.119][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:58.121][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-03-25 19:45:58.123][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:58.124][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:58.125][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:58.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:58.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:58.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:58.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:58.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:58.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:58.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:58.147][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.148][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.150][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.156][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:58.157][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:58.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.159][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.160][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:58.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:58.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.165][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:58.166][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:58.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.168][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.169][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:58.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:58.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.174][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:58.175][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:58.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.178][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.179][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:58.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:58.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.183][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.184][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.186][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.192][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:58.194][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:58.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.196][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.198][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:58.199][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.202][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.203][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:58.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.208][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.209][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.211][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.216][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:58.218][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:58.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.220][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:58.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:58.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.227][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:58.228][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:58.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.230][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.231][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:58.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:58.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.236][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:58.237][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:58.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.239][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.241][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:58.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:58.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:58.299][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-03-25 19:45:58.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:58.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:58.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:58.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:58.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:58.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:58.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:58.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:58.328][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-03-25 19:45:58.329][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:58.330][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-03-25 19:45:58.332][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:58.334][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-03-25 19:45:58.335][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:58.337][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:58.338][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:58.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:58.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:58.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:58.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:58.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:58.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:58.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:58.354][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.355][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.357][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.364][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:58.366][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:58.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.375][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.377][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:58.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:58.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.383][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:58.384][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:58.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.385][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.387][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:58.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:58.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.391][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:58.392][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:58.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.394][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:58.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:58.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.400][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.401][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.403][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.410][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:58.411][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:58.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.414][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.416][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:58.416][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.419][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.420][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:58.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.425][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.426][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.429][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.434][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:58.436][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:58.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.438][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:58.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:58.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.444][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:58.445][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:58.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.447][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.449][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:58.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:58.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.453][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:58.454][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:58.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.457][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.458][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:58.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:58.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:58.520][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-03-25 19:45:58.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:58.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:58.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:58.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:58.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:58.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:58.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:58.548][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[2025-03-25 19:45:58.549][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-03-25 19:45:58.551][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:58.553][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-03-25 19:45:58.555][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:58.557][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-03-25 19:45:58.558][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:58.560][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:58.561][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:58.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:58.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:58.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:58.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:58.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:58.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:58.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:58.579][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.580][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.583][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.589][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:58.590][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:58.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.593][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.594][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:58.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:58.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.600][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:58.601][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:58.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.603][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.605][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:58.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:58.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.610][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:58.612][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:58.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.614][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:58.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:58.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.628][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.630][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.632][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.638][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:58.640][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:58.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.642][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.644][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:58.645][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.647][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.648][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:58.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.653][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.654][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.656][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.663][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:58.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:58.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.666][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:58.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:58.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.674][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:58.675][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:58.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.678][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.680][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:58.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:58.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.685][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:58.686][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:58.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.688][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.690][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:58.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:58.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:58.751][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-03-25 19:45:58.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:58.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:58.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:58.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:58.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:58.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:58.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:58.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:58.780][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-03-25 19:45:58.781][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:58.782][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-03-25 19:45:58.784][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:58.786][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-03-25 19:45:58.787][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:58.789][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:58.790][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:58.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:58.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:58.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:58.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:58.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:58.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:58.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:58.808][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.809][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.811][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.817][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:58.819][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:58.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.821][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.822][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:58.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:58.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.829][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:58.830][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:58.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.832][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.834][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:58.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:58.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.839][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:58.840][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:58.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.843][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:58.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:58.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.849][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.850][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.852][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.854][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:58.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.859][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:58.860][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:58.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.863][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.864][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:58.866][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.874][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.876][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:58.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.881][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.882][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.885][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:58.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.892][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:58.893][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:58.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.895][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:58.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:58.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.901][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:58.902][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:58.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.904][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.906][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:58.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:58.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.910][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:58.911][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:58.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.913][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.915][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:58.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:58.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:58.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:58.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:58.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:58.967][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-03-25 19:45:58.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:58.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:58.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:58.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:58.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:58.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:58.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:45:59.007][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-03-25 19:45:59.008][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:45:59.010][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-03-25 19:45:59.012][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:59.014][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-03-25 19:45:59.015][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:45:59.017][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:45:59.019][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:45:59.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.039][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:59.040][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:59.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.043][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:59.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:59.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.050][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:59.051][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:59.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.054][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.055][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:45:59.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:45:59.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.059][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:59.061][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:59.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.063][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.065][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:45:59.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:45:59.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.070][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:59.071][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:59.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.073][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.075][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:45:59.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:45:59.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.079][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:59.081][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:59.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.083][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:45:59.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:45:59.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.089][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:59.090][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:45:59.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.093][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.094][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:59.095][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.097][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.099][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:45:59.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.105][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.106][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.109][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.116][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:59.117][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:59.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.126][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.128][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:45:59.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:45:59.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.133][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:59.134][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:59.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.137][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.138][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:45:59.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:45:59.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.143][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:59.144][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:59.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.147][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.148][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:45:59.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:45:59.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:59.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:59.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:59.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:59.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:59.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:59.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:45:59.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:45:59.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:59.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:59.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:59.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:59.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:59.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:59.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:59.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:59.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:59.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:59.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:45:59.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:45:59.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.201][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-03-25 19:45:59.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.244][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[2025-03-25 19:45:59.256][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:45:59.258][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-25 19:45:59.260][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:45:59.262][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-25 19:45:59.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.306][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[2025-03-25 19:45:59.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.345][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[2025-03-25 19:45:59.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.660][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[2025-03-25 19:45:59.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.721][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[2025-03-25 19:45:59.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.747][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.751][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.TRACE[2025-03-25 19:45:59.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:45:59.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:45:59.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:45:59.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:45:59.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:45:59.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:45:59.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:45:59.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:45:59.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:45:59.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:45:59.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:45:59.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:45:59.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.024][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[2025-03-25 19:46:00.028][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:00.030][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-03-25 19:46:00.032][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:00.034][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-03-25 19:46:00.038][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[2025-03-25 19:46:00.042][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:00.044][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-03-25 19:46:00.046][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:00.048][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-03-25 19:46:00.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:00.236][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-03-25 19:46:00.237][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:46:00.239][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-03-25 19:46:00.241][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:00.243][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-03-25 19:46:00.244][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:46:00.245][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:46:00.246][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:46:00.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:00.263][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.264][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.266][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.273][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:00.274][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:00.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.276][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.277][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:00.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:00.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.282][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:00.283][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:00.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.286][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:00.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:00.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.292][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:46:00.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:46:00.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.295][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:46:00.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:46:00.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.302][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:46:00.303][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:46:00.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.306][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:46:00.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:46:00.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.312][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:00.313][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:00.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.315][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.317][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:00.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:00.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.321][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:00.323][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:00.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.324][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.326][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:00.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:00.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.330][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.332][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.334][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.341][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:00.342][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:00.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.344][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:00.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:00.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.352][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:00.353][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:00.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.355][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.357][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:00.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:00.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.362][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:00.363][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:00.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.365][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.367][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:00.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:00.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.425][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-03-25 19:46:00.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.456][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.TRACE[2025-03-25 19:46:00.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:00.490][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-03-25 19:46:00.491][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:46:00.493][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-03-25 19:46:00.495][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:00.497][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-03-25 19:46:00.499][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:46:00.500][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:46:00.501][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:46:00.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:00.519][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.521][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.524][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.531][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:00.532][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:00.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.534][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.536][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:00.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:00.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.540][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:00.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:00.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.544][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.545][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:00.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:00.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.551][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:46:00.553][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:46:00.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.555][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:46:00.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:46:00.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.562][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:46:00.564][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:46:00.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.566][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.568][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:46:00.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:46:00.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.573][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:00.574][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:00.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.577][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.578][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:00.580][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:00.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.583][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.584][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:00.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:00.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.590][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.591][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.593][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.601][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:00.602][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:00.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.605][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.607][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:00.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:00.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.613][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:00.614][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:00.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.617][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.619][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:00.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:00.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.624][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:00.625][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:00.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.628][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.629][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:00.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:00.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:00.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:00.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:00.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.689][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-03-25 19:46:00.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.736][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[2025-03-25 19:46:00.740][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:00.742][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-25 19:46:00.743][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:00.745][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-25 19:46:00.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:00.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:00.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:00.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:00.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:00.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:00.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:00.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:00.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:00.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:00.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:00.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:00.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:00.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:00.987][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.TRACE[2025-03-25 19:46:00.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:00.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:00.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:00.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.067][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.068][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.TRACE[2025-03-25 19:46:01.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.241][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.TRACE[2025-03-25 19:46:01.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.364][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[2025-03-25 19:46:01.367][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:01.369][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-25 19:46:01.371][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:01.372][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-25 19:46:01.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.414][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.TRACE[2025-03-25 19:46:01.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.518][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[2025-03-25 19:46:01.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.667][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.734][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[2025-03-25 19:46:01.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:01.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:01.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:01.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:01.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:01.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:01.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:01.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:01.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:01.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:01.973][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-25 19:46:01.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-25 19:46:01.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:01.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-25 19:46:01.989][biodb::testThat]
biodb.INFO [2025-03-25 19:46:01.991][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-03-25 19:46:01.992][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:01.993][biodb::testThat]
biodb.TRACE[2025-03-25 19:46:01.996][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 19:46:01.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 19:46:01.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:02.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:02.036][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[2025-03-25 19:46:02.040][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:02.042][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-25 19:46:02.052][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:02.054][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-25 19:46:02.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.067][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.067][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[2025-03-25 19:46:02.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:02.082][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[2025-03-25 19:46:02.087][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:02.089][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-25 19:46:02.091][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:02.093][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-25 19:46:02.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:02.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:02.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:02.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:02.148][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-25 19:46:02.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:02.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.172][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.173][private$selectFields]
biodb.TRACE[2025-03-25 19:46:02.174][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:02.175][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:02.177][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.178][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.179][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.182][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.183][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.185][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.187][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.188][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.190][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.191][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.192][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.194][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.196][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:02.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.222][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-25 19:46:02.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:02.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.247][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.248][private$selectFields]
biodb.TRACE[2025-03-25 19:46:02.248][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:02.250][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:02.251][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.253][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.254][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.256][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.257][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.258][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.261][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.262][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.263][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.264][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.268][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.270][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:02.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.285][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-25 19:46:02.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:02.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.312][private$selectFields]
biodb.TRACE[2025-03-25 19:46:02.313][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:02.314][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:02.316][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.317][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.318][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.320][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.321][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.323][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.325][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.326][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.327][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.328][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.329][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.331][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.331][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:02.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.344][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-25 19:46:02.345][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-25 19:46:02.346][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-25 19:46:02.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:02.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.462][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.466][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[2025-03-25 19:46:02.477][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[2025-03-25 19:46:02.482][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:02.483][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-25 19:46:02.485][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:02.488][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-25 19:46:02.492][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[2025-03-25 19:46:02.496][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:02.498][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-25 19:46:02.499][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:02.501][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-25 19:46:02.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.517][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.TRACE[2025-03-25 19:46:02.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:02.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:02.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:02.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.564][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.TRACE[2025-03-25 19:46:02.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:02.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:02.605][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-25 19:46:02.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:02.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.658][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.659][private$selectFields]
biodb.TRACE[2025-03-25 19:46:02.660][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:02.661][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:02.663][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.664][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.665][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.667][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.668][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.672][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.673][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.674][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.675][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.676][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.678][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.680][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:02.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.694][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-25 19:46:02.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:02.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.762][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.763][private$selectFields]
biodb.TRACE[2025-03-25 19:46:02.764][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:02.766][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:02.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.768][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.772][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.773][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.774][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.776][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.777][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.793][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.794][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.796][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.798][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.799][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:02.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.817][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-25 19:46:02.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:02.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.845][private$selectFields]
biodb.TRACE[2025-03-25 19:46:02.846][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:02.847][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:02.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.850][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.851][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.853][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.854][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.856][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.858][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.859][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.860][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:02.861][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.862][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.864][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.866][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:02.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:02.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.891][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-25 19:46:02.892][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-25 19:46:02.893][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-25 19:46:02.906][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-25 19:46:02.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-25 19:46:02.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-25 19:46:02.917][biodb::testThat]
biodb.INFO [2025-03-25 19:46:02.918][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-03-25 19:46:02.920][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:02.921][biodb::testThat]
biodb.TRACE[2025-03-25 19:46:02.925][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 19:46:02.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 19:46:02.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:02.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:02.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:02.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:02.970][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[2025-03-25 19:46:02.974][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:02.975][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-25 19:46:02.977][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:02.979][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-25 19:46:02.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:02.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:02.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:02.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:02.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:02.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:02.995][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[2025-03-25 19:46:02.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:02.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:03.012][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[2025-03-25 19:46:03.016][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:03.018][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-25 19:46:03.020][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:03.022][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-25 19:46:03.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:03.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.068][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.TRACE[2025-03-25 19:46:03.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:03.084][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-25 19:46:03.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.110][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.111][private$selectFields]
biodb.TRACE[2025-03-25 19:46:03.112][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:03.113][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:03.114][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.116][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.117][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.119][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.120][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.124][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.126][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.127][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.128][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.130][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.132][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.133][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:03.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.152][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-25 19:46:03.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.180][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.181][private$selectFields]
biodb.TRACE[2025-03-25 19:46:03.182][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:03.183][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:03.185][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.190][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.191][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.195][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.197][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.198][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.199][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.200][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.202][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.203][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:03.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.218][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-25 19:46:03.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.243][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.244][private$selectFields]
biodb.TRACE[2025-03-25 19:46:03.245][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:03.246][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:03.247][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.248][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.249][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.251][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.252][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.253][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.255][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.256][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.257][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.259][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.260][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.263][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.264][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:03.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.279][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-25 19:46:03.280][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-25 19:46:03.281][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-25 19:46:03.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:03.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:03.334][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[2025-03-25 19:46:03.338][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:03.340][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-25 19:46:03.342][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:03.344][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-25 19:46:03.348][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[2025-03-25 19:46:03.359][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:03.361][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-25 19:46:03.363][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:03.365][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-25 19:46:03.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:03.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:03.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:03.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:03.455][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-25 19:46:03.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.481][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.481][private$selectFields]
biodb.TRACE[2025-03-25 19:46:03.483][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:03.484][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:03.485][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.486][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.489][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.490][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.491][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.493][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.494][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.496][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.497][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.498][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.501][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.502][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:03.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.519][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-25 19:46:03.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.545][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.547][private$selectFields]
biodb.TRACE[2025-03-25 19:46:03.548][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:03.549][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:03.550][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.552][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.553][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.555][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.556][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.557][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.560][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.560][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.562][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.563][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.564][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.566][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.567][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:03.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.584][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-25 19:46:03.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.598][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.TRACE[2025-03-25 19:46:03.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.609][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.610][private$selectFields]
biodb.TRACE[2025-03-25 19:46:03.611][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:03.612][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:03.613][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.615][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.616][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.618][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.619][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.620][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.622][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.623][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.624][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.625][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.627][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.629][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.630][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:03.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.661][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-25 19:46:03.662][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-25 19:46:03.663][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-25 19:46:03.676][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-25 19:46:03.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-25 19:46:03.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-25 19:46:03.687][biodb::testThat]
biodb.INFO [2025-03-25 19:46:03.689][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-03-25 19:46:03.690][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:03.691][biodb::testThat]
biodb.TRACE[2025-03-25 19:46:03.695][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 19:46:03.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 19:46:03.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:03.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:03.741][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[2025-03-25 19:46:03.744][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:03.746][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-25 19:46:03.748][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:03.750][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-25 19:46:03.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:03.782][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[2025-03-25 19:46:03.785][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:03.787][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-25 19:46:03.788][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:03.789][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-25 19:46:03.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:03.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:03.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:03.856][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-25 19:46:03.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.882][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.883][private$selectFields]
biodb.TRACE[2025-03-25 19:46:03.884][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:03.885][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:03.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.887][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.891][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.892][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.893][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.896][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.897][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.899][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.900][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.904][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.905][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:03.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.919][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-25 19:46:03.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.941][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.942][private$selectFields]
biodb.TRACE[2025-03-25 19:46:03.943][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:03.944][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:03.945][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.946][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.947][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.949][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.953][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.955][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.956][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.957][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.958][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.959][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.960][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:03.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.975][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-25 19:46:03.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:03.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:03.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:03.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:03.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:03.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:03.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:03.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:03.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:03.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:03.997][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:03.998][private$selectFields]
biodb.TRACE[2025-03-25 19:46:03.999][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:04.001][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:04.002][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.003][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.004][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.006][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.007][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.011][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.012][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.013][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.014][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.016][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.020][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.021][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:04.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.036][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-25 19:46:04.037][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-25 19:46:04.038][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-25 19:46:04.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:04.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:04.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:04.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:04.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:04.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:04.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:04.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:04.101][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[2025-03-25 19:46:04.105][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:04.107][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-25 19:46:04.108][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:04.110][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-25 19:46:04.114][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[2025-03-25 19:46:04.119][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:04.121][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-25 19:46:04.123][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:04.125][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-25 19:46:04.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:04.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:04.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:04.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:04.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:04.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:04.140][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[2025-03-25 19:46:04.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:04.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:04.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:04.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:04.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:04.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:04.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:04.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:04.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:04.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:04.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:04.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:04.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:04.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:04.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:04.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:04.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:04.213][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-25 19:46:04.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:04.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:04.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:04.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:04.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:04.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:04.226][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[2025-03-25 19:46:04.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.236][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.237][private$selectFields]
biodb.TRACE[2025-03-25 19:46:04.239][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:04.240][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:04.241][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.243][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.245][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.246][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.247][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.249][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.250][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.251][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.252][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.253][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.255][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.256][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:04.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.279][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-25 19:46:04.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:04.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:04.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:04.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:04.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:04.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:04.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:04.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.304][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.305][private$selectFields]
biodb.TRACE[2025-03-25 19:46:04.306][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:04.308][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:04.309][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.310][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.311][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.313][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.315][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.316][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.318][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.319][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.320][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.321][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.323][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.325][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.325][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:04.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.342][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-25 19:46:04.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:04.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:04.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:04.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:04.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:04.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:04.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:04.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.368][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.369][private$selectFields]
biodb.TRACE[2025-03-25 19:46:04.370][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-25 19:46:04.371][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-25 19:46:04.372][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.372][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.374][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.375][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.379][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.381][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.382][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-25 19:46:04.383][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.384][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.387][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.388][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-25 19:46:04.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.403][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-25 19:46:04.404][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-25 19:46:04.405][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-25 19:46:04.433][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-25 19:46:04.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-25 19:46:04.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-25 19:46:04.444][biodb::testThat]
biodb.INFO [2025-03-25 19:46:04.445][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-03-25 19:46:04.447][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:04.448][biodb::testThat]
biodb.DEBUG[2025-03-25 19:46:04.451][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-25 19:46:04.452][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:46:04.454][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-25 19:46:04.456][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:04.458][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-03-25 19:46:04.460][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:46:04.461][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:46:04.463][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:46:04.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:04.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:04.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:04.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:04.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:04.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:04.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:04.480][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.482][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.485][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.492][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:04.494][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:04.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.496][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.498][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:04.499][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:04.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.502][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.504][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:46:04.505][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:46:04.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.508][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.509][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.511][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.512][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.514][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.515][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.517][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.519][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:04.520][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:04.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.522][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.523][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.524][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.526][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.528][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:04.529][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:04.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.531][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.532][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:04.534][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:04.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.536][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.537][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:04.538][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:04.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.540][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:04.590][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-03-25 19:46:04.591][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-25 19:46:04.602][biodb::testThat]
biodb.INFO [2025-03-25 19:46:04.603][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-25 19:46:04.604][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:04.605][biodb::testThat]
biodb.DEBUG[2025-03-25 19:46:04.616][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-03-25 19:46:04.618][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-03-25 19:46:04.619][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-03-25 19:46:04.621][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-03-25 19:46:04.623][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-03-25 19:46:04.626][loadFileContents] Loaded 3 files from cache: [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-03-25 19:46:04.628][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:46:04.629][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-03-25 19:46:04.630][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-03-25 19:46:04.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:04.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:04.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:04.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:04.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:04.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:04.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:04.648][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.650][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.652][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.659][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:04.660][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:04.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.662][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.664][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:04.665][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:04.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.667][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.668][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:46:04.669][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:46:04.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.671][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.673][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.675][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.677][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.679][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.680][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.682][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.684][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:04.685][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:04.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.687][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.688][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.689][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.691][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.693][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:04.694][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:04.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.696][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.697][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:04.699][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:04.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.701][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.702][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:04.703][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:04.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.714][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:04.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:04.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:04.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:04.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:04.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:04.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:04.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:04.764][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.766][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.768][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.774][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:04.776][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:04.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.780][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.782][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:04.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:04.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.788][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:04.789][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:04.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.791][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.793][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:04.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:04.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.798][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:46:04.800][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:46:04.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.802][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:46:04.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:46:04.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.808][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.810][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.812][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.814][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.818][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.820][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.822][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.823][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.828][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:04.830][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:04.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.832][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.834][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:04.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:04.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.838][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.840][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.842][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:04.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.849][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:04.850][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:04.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.853][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:04.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:04.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.860][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:04.861][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:04.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.864][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.865][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:04.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:04.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.870][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:04.871][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:04.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.873][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.875][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:04.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:04.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:04.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:04.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:04.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:04.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:04.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:04.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:04.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:04.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:04.931][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.932][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.935][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:04.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:04.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.940][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:04.941][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:04.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.943][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.945][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:04.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:04.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.949][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:04.951][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:04.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.953][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.955][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:04.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:04.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.959][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:46:04.960][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:46:04.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.962][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:46:04.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:46:04.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.968][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.970][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.972][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:46:04.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.978][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.980][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.982][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.984][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:04.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.989][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:04.991][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:04.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.993][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:04.995][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:04.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:04.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:04.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.000][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:05.001][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:05.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.004][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:05.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:05.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.011][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:05.012][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:05.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.015][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.017][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:05.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:05.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.022][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:05.023][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:05.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.025][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.027][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:05.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:05.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.033][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:05.034][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:05.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.036][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.038][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:05.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:05.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:05.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:05.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:05.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:05.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:05.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:05.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:05.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:05.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:05.125][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-03-25 19:46:05.126][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-25 19:46:05.127][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-03-25 19:46:05.147][biodb::testThat]
biodb.INFO [2025-03-25 19:46:05.149][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-03-25 19:46:05.150][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:05.151][biodb::testThat]
biodb.INFO [2025-03-25 19:46:05.191][biodb::testThat]
biodb.INFO [2025-03-25 19:46:05.192][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-03-25 19:46:05.194][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:05.196][biodb::testThat]
biodb.INFO [2025-03-25 19:46:05.209][biodb::testThat]
biodb.INFO [2025-03-25 19:46:05.211][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-03-25 19:46:05.212][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:05.214][biodb::testThat]
biodb.DEBUG[2025-03-25 19:46:05.217][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[2025-03-25 19:46:05.222][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:05.224][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-03-25 19:46:05.225][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:05.228][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-03-25 19:46:05.243][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:05.245][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:05.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.248][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:05.249][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:05.250][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:05.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:05.253][ef$get] fields variable is a list.
biodb.INFO [2025-03-25 19:46:05.255][biodb::testThat]
biodb.INFO [2025-03-25 19:46:05.256][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-03-25 19:46:05.257][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:05.258][biodb::testThat]
biodb.ERROR[2025-03-25 19:46:05.277][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-03-25 19:46:05.301][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-03-25 19:46:05.322][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-25 19:46:05.324][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-25 19:46:05.326][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-25 19:46:05.327][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-25 19:46:05.328][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:05.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:05.330][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.333][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.334][FUN] Functions in observer BiodbConfig: [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 [2025-03-25 19:46:05.347][biodb::testContext]
biodb.INFO [2025-03-25 19:46:05.349][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 19:46:05.350][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-03-25 19:46:05.352][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 19:46:05.353][biodb::testContext]
biodb.INFO [2025-03-25 19:46:05.356][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-25 19:46:05.358][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-25 19:46:05.364][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:46:05.366][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-25 19:46:05.368][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-25 19:46:05.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.373][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-25 19:46:05.374][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-25 19:46:05.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.379][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-25 19:46:05.381][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-25 19:46:05.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.386][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-25 19:46:05.387][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-25 19:46:05.389][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-25 19:46:05.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.394][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-25 19:46:05.395][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-25 19:46:05.397][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-25 19:46:05.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.401][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-25 19:46:05.402][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-25 19:46:05.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.406][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-25 19:46:05.408][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-25 19:46:05.409][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-25 19:46:05.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.414][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-25 19:46:05.415][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-25 19:46:05.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.418][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[2025-03-25 19:46:05.420][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-25 19:46:05.421][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-25 19:46:05.423][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-25 19:46:05.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.428][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-25 19:46:05.429][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-25 19:46:05.430][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-25 19:46:05.432][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-25 19:46:05.433][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-25 19:46:05.434][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-25 19:46:05.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.439][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-25 19:46:05.440][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-25 19:46:05.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.445][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-25 19:46:05.447][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-25 19:46:05.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.452][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-25 19:46:05.453][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-25 19:46:05.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.457][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-25 19:46:05.459][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-25 19:46:05.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.464][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-25 19:46:05.465][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-25 19:46:05.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.470][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-25 19:46:05.472][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-25 19:46:05.494][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-25 19:46:05.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.499][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-25 19:46:05.501][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-25 19:46:05.502][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-25 19:46:05.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.507][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-25 19:46:05.509][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.510][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-25 19:46:05.511][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.513][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:05.514][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.515][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.517][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.518][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.520][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 19:46:05.521][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:05.522][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.524][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-25 19:46:05.525][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:05.526][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.527][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.529][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:46:05.529][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:46:05.529][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:46:05.529][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 19:46:05.529][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 19:46:05.530][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:05.532][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:05.533][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:05.535][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:05.537][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:05.539][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:05.540][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.541][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.543][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:05.544][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:05.545][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.547][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.548][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-25 19:46:05.551][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.552][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 19:46:05.553][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.554][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:05.556][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.557][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.558][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.559][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.560][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 19:46:05.561][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:05.563][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.564][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-25 19:46:05.565][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:05.567][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.568][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.570][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:46:05.570][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:46:05.570][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:46:05.570][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 19:46:05.570][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 19:46:05.571][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:05.572][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:05.572][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:05.574][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:05.575][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:05.576][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:05.578][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.579][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.580][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:05.581][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:05.582][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.584][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.586][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-25 19:46:05.588][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.589][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-25 19:46:05.590][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.592][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:05.593][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.595][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.596][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.597][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.599][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 19:46:05.600][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:05.602][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.603][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-25 19:46:05.605][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:05.606][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.607][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.609][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.611][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:05.612][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:05.613][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:05.614][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:05.616][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:05.617][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:05.618][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.619][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.621][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:05.622][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:05.623][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.624][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.626][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-25 19:46:05.628][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.630][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 19:46:05.631][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.632][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:05.633][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.635][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.636][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.637][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.639][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 19:46:05.640][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:05.641][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.643][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-25 19:46:05.644][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:05.645][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.647][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:05.648][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.649][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:05.650][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:05.652][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:05.653][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:05.654][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:05.656][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:05.657][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:05.658][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.660][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:05.661][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:05.671][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:05.673][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:05.674][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:46:05.676][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.677][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[2025-03-25 19:46:05.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.683][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[2025-03-25 19:46:05.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.709][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[2025-03-25 19:46:05.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.720][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[2025-03-25 19:46:05.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.730][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[2025-03-25 19:46:05.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.741][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[2025-03-25 19:46:05.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.777][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-25 19:46:05.779][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-25 19:46:05.781][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-25 19:46:05.783][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-25 19:46:05.785][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-25 19:46:05.787][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-25 19:46:05.789][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-25 19:46:05.790][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-25 19:46:05.792][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-25 19:46:05.794][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-25 19:46:05.796][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 19:46:05.798][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-25 19:46:05.800][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-25 19:46:05.802][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-25 19:46:05.803][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-25 19:46:05.805][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-25 19:46:05.807][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-25 19:46:05.809][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-25 19:46:05.811][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-25 19:46:05.813][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-25 19:46:05.815][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-25 19:46:05.817][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-25 19:46:05.818][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-25 19:46:05.820][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-25 19:46:05.822][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-25 19:46:05.838][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-25 19:46:05.840][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-25 19:46:05.842][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-25 19:46:05.845][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-25 19:46:05.847][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-25 19:46:05.850][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-25 19:46:05.854][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-25 19:46:05.856][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-25 19:46:05.858][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-25 19:46:05.860][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-25 19:46:05.862][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-25 19:46:05.864][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-25 19:46:05.866][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-25 19:46:05.868][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-25 19:46:05.870][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-25 19:46:05.872][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-25 19:46:05.874][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-25 19:46:05.876][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-25 19:46:05.878][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-25 19:46:05.880][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-25 19:46:05.882][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-25 19:46:05.884][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-25 19:46:05.886][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-25 19:46:05.888][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-25 19:46:05.890][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-25 19:46:05.892][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-25 19:46:05.894][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-25 19:46:05.896][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-25 19:46:05.898][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-25 19:46:05.900][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-25 19:46:05.902][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-25 19:46:05.904][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-25 19:46:05.906][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-25 19:46:05.908][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-25 19:46:05.910][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-25 19:46:05.912][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-25 19:46:05.914][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-25 19:46:05.916][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-25 19:46:05.917][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-25 19:46:05.919][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-25 19:46:05.921][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-25 19:46:05.923][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-25 19:46:05.925][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-25 19:46:05.927][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-25 19:46:05.929][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-25 19:46:05.931][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-25 19:46:05.933][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-25 19:46:05.934][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-25 19:46:05.936][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-25 19:46:05.938][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-25 19:46:05.940][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-25 19:46:05.941][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-25 19:46:05.943][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-25 19:46:05.945][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-25 19:46:05.946][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-25 19:46:05.948][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-25 19:46:05.950][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-25 19:46:05.951][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-25 19:46:05.953][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-25 19:46:05.954][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-25 19:46:05.956][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:46:05.957][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.959][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:05.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:05.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:05.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:05.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:05.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:05.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.983][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[2025-03-25 19:46:05.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:05.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:05.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:05.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:05.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:05.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:05.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:05.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:05.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:05.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.039][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[2025-03-25 19:46:06.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.047][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[2025-03-25 19:46:06.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.063][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[2025-03-25 19:46:06.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.080][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[2025-03-25 19:46:06.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.088][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[2025-03-25 19:46:06.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.096][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[2025-03-25 19:46:06.099][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-25 19:46:06.101][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-25 19:46:06.103][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.105][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.106][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.108][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:06.109][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.111][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.112][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.114][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-25 19:46:06.115][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-25 19:46:06.116][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:06.118][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.119][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-25 19:46:06.120][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:06.122][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-25 19:46:06.122][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-25 19:46:06.122][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-25 19:46:06.122][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-25 19:46:06.122][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-25 19:46:06.122][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-25 19:46:06.122][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-25 19:46:06.122][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-25 19:46:06.122][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-25 19:46:06.122][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-25 19:46:06.122][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-25 19:46:06.123][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.125][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:46:06.125][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:46:06.125][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:46:06.126][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-25 19:46:06.127][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:06.128][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:06.130][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:06.139][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:06.140][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:06.142][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.143][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:46:06.143][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-25 19:46:06.144][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:06.146][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:06.147][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.148][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-25 19:46:06.148][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-25 19:46:06.150][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-25 19:46:06.152][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 19:46:06.154][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-25 19:46:06.156][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-25 19:46:06.158][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-25 19:46:06.160][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-25 19:46:06.164][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-25 19:46:06.165][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-25 19:46:06.166][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-25 19:46:06.169][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-25 19:46:06.170][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 19:46:06.171][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 19:46:06.173][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-25 19:46:06.174][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-25 19:46:06.176][biodb::testThat]
biodb.INFO [2025-03-25 19:46:06.177][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-03-25 19:46:06.178][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:06.179][biodb::testThat]
biodb.DEBUG[2025-03-25 19:46:06.184][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-25 19:46:06.189][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:06.191][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-25 19:46:06.192][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:06.195][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-25 19:46:06.199][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[2025-03-25 19:46:06.205][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:06.207][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-25 19:46:06.209][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:06.211][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-25 19:46:06.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:06.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.229][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[2025-03-25 19:46:06.256][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[2025-03-25 19:46:06.261][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:06.263][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-25 19:46:06.265][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:06.268][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-25 19:46:06.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:06.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:06.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.334][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[2025-03-25 19:46:06.338][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:06.340][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-25 19:46:06.342][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:06.344][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-25 19:46:06.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:06.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.363][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[2025-03-25 19:46:06.367][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:06.369][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-25 19:46:06.370][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:06.372][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-25 19:46:06.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:06.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:06.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.404][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[2025-03-25 19:46:06.409][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[2025-03-25 19:46:06.414][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:06.416][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-25 19:46:06.418][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:06.420][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-25 19:46:06.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:06.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.438][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[2025-03-25 19:46:06.442][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:06.443][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-25 19:46:06.445][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:06.447][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-25 19:46:06.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:06.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.466][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[2025-03-25 19:46:06.471][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:06.473][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2025-03-25 19:46:06.474][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:06.476][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2025-03-25 19:46:06.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:06.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-25 19:46:06.501][biodb::testThat]
biodb.INFO [2025-03-25 19:46:06.503][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-03-25 19:46:06.504][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:06.505][biodb::testThat]
biodb.DEBUG[2025-03-25 19:46:06.510][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[2025-03-25 19:46:06.515][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:06.517][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2025-03-25 19:46:06.519][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:06.521][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2025-03-25 19:46:06.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:06.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.537][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.DEBUG[2025-03-25 19:46:06.542][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[2025-03-25 19:46:06.546][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:06.548][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2025-03-25 19:46:06.549][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:06.552][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2025-03-25 19:46:06.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:06.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.566][FUN] Functions in observer BiodbConfig: [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 [2025-03-25 19:46:06.573][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-25 19:46:06.575][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-25 19:46:06.576][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-25 19:46:06.577][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-25 19:46:06.578][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:06.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:06.581][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.583][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.585][FUN] Functions in observer BiodbConfig: [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 [2025-03-25 19:46:06.590][biodb::testContext]
biodb.INFO [2025-03-25 19:46:06.591][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 19:46:06.592][biodb::testContext] Test context - Test web services
biodb.INFO [2025-03-25 19:46:06.593][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 19:46:06.594][biodb::testContext]
biodb.INFO [2025-03-25 19:46:06.597][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-25 19:46:06.599][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-25 19:46:06.605][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:46:06.606][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-25 19:46:06.607][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-25 19:46:06.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.613][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-25 19:46:06.614][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-25 19:46:06.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.619][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-25 19:46:06.620][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-25 19:46:06.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.625][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-25 19:46:06.626][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-25 19:46:06.627][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-25 19:46:06.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.632][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-25 19:46:06.633][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-25 19:46:06.635][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-25 19:46:06.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.640][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-25 19:46:06.641][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-25 19:46:06.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.645][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-25 19:46:06.653][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-25 19:46:06.654][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-25 19:46:06.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.659][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-25 19:46:06.660][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-25 19:46:06.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.664][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-25 19:46:06.665][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-25 19:46:06.666][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-25 19:46:06.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.671][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-25 19:46:06.672][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-25 19:46:06.673][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-25 19:46:06.674][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-25 19:46:06.675][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-25 19:46:06.677][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-25 19:46:06.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.680][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[2025-03-25 19:46:06.681][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-25 19:46:06.683][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-25 19:46:06.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.687][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-25 19:46:06.689][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-25 19:46:06.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.693][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-25 19:46:06.694][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-25 19:46:06.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.699][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-25 19:46:06.700][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-25 19:46:06.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.705][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-25 19:46:06.706][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-25 19:46:06.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.711][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-25 19:46:06.712][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-25 19:46:06.737][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-25 19:46:06.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.743][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-25 19:46:06.745][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-25 19:46:06.746][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-25 19:46:06.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.751][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-25 19:46:06.754][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.755][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-25 19:46:06.756][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.758][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:06.759][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.760][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.761][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.761][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.763][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 19:46:06.764][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:06.765][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.766][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-25 19:46:06.768][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:06.769][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.770][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.771][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:46:06.771][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:46:06.771][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:46:06.771][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 19:46:06.771][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 19:46:06.772][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:06.773][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:06.775][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:06.776][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:06.777][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:06.778][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:06.779][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.780][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.781][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:06.782][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:06.783][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.785][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.786][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-25 19:46:06.788][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.790][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 19:46:06.791][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.793][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:06.794][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.795][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.796][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.798][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.799][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 19:46:06.800][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:06.801][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.802][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-25 19:46:06.804][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:06.805][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.807][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.808][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:46:06.808][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:46:06.808][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:46:06.808][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 19:46:06.808][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 19:46:06.810][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:06.811][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:06.812][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:06.813][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:06.815][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:06.816][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:06.817][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.818][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.819][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:06.821][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:06.822][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.823][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.825][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-25 19:46:06.828][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.829][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-25 19:46:06.830][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.832][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:06.833][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.834][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.836][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.837][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.838][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 19:46:06.840][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:06.841][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.843][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-25 19:46:06.844][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:06.846][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.847][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.848][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.849][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:06.851][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:06.852][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:06.853][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:06.854][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:06.856][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:06.857][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.858][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.859][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:06.860][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:06.861][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.862][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.864][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-25 19:46:06.866][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.867][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 19:46:06.868][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.869][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:06.871][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.872][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.873][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.875][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.876][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 19:46:06.878][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:06.879][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.880][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-25 19:46:06.882][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:06.883][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.884][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:06.886][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.887][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:06.889][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:06.890][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:06.891][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:06.892][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:06.893][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:06.894][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:06.895][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.897][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:06.898][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:06.899][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:06.900][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:06.902][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:46:06.903][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.904][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[2025-03-25 19:46:06.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.948][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[2025-03-25 19:46:06.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:06.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:06.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:06.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:06.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:06.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.009][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-25 19:46:07.011][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-25 19:46:07.013][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-25 19:46:07.015][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-25 19:46:07.017][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-25 19:46:07.018][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-25 19:46:07.020][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-25 19:46:07.022][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-25 19:46:07.023][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-25 19:46:07.025][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-25 19:46:07.027][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 19:46:07.029][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-25 19:46:07.030][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-25 19:46:07.032][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-25 19:46:07.034][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-25 19:46:07.036][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-25 19:46:07.037][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-25 19:46:07.039][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-25 19:46:07.041][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-25 19:46:07.044][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-25 19:46:07.048][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-25 19:46:07.050][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-25 19:46:07.052][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-25 19:46:07.054][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-25 19:46:07.056][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-25 19:46:07.058][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-25 19:46:07.060][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-25 19:46:07.062][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-25 19:46:07.064][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-25 19:46:07.066][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-25 19:46:07.068][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-25 19:46:07.071][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-25 19:46:07.072][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-25 19:46:07.074][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-25 19:46:07.076][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-25 19:46:07.078][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-25 19:46:07.079][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-25 19:46:07.081][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-25 19:46:07.083][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-25 19:46:07.085][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-25 19:46:07.087][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-25 19:46:07.089][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-25 19:46:07.091][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-25 19:46:07.093][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-25 19:46:07.094][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-25 19:46:07.096][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-25 19:46:07.098][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-25 19:46:07.100][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-25 19:46:07.101][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-25 19:46:07.103][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-25 19:46:07.105][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-25 19:46:07.106][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-25 19:46:07.108][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-25 19:46:07.111][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-25 19:46:07.113][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-25 19:46:07.124][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-25 19:46:07.139][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-25 19:46:07.141][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-25 19:46:07.142][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-25 19:46:07.144][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-25 19:46:07.146][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-25 19:46:07.148][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-25 19:46:07.150][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-25 19:46:07.153][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-25 19:46:07.155][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-25 19:46:07.158][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-25 19:46:07.160][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-25 19:46:07.161][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-25 19:46:07.163][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-25 19:46:07.164][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-25 19:46:07.166][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-25 19:46:07.168][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-25 19:46:07.169][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-25 19:46:07.170][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-25 19:46:07.172][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-25 19:46:07.174][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-25 19:46:07.176][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-25 19:46:07.177][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-25 19:46:07.179][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-25 19:46:07.180][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-25 19:46:07.182][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-25 19:46:07.184][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-25 19:46:07.186][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-25 19:46:07.188][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-25 19:46:07.190][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-25 19:46:07.192][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:46:07.192][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.194][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.219][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[2025-03-25 19:46:07.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.235][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[2025-03-25 19:46:07.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.251][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.DEBUG[2025-03-25 19:46:07.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.260][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[2025-03-25 19:46:07.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.317][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.DEBUG[2025-03-25 19:46:07.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.335][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-25 19:46:07.337][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-25 19:46:07.340][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.341][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.342][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.343][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:07.345][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.346][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.347][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.349][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-25 19:46:07.350][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-25 19:46:07.351][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:07.352][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.353][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-25 19:46:07.354][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:07.356][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-25 19:46:07.356][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-25 19:46:07.356][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-25 19:46:07.356][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-25 19:46:07.356][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-25 19:46:07.356][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-25 19:46:07.356][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-25 19:46:07.356][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-25 19:46:07.356][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-25 19:46:07.356][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-25 19:46:07.356][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-25 19:46:07.357][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.358][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:46:07.358][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:46:07.358][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:46:07.360][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-25 19:46:07.361][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:07.362][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:07.363][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:07.364][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:07.365][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:07.366][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.368][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:46:07.368][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-25 19:46:07.369][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:07.370][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:07.372][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.373][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-25 19:46:07.373][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-25 19:46:07.375][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-25 19:46:07.377][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 19:46:07.379][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-25 19:46:07.382][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-25 19:46:07.384][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-25 19:46:07.386][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-25 19:46:07.390][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-25 19:46:07.391][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-25 19:46:07.393][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-25 19:46:07.395][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-25 19:46:07.396][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 19:46:07.397][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 19:46:07.399][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-25 19:46:07.400][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-25 19:46:07.402][biodb::testThat]
biodb.INFO [2025-03-25 19:46:07.403][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-03-25 19:46:07.405][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:07.406][biodb::testThat]
biodb.DEBUG[2025-03-25 19:46:07.409][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-25 19:46:07.414][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:07.416][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-25 19:46:07.418][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:07.420][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-25 19:46:07.424][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[2025-03-25 19:46:07.429][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:07.431][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-25 19:46:07.432][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:07.435][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2025-03-25 19:46:07.445][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-25 19:46:07.446][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-25 19:46:07.448][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-25 19:46:07.449][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-25 19:46:07.450][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:07.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:07.452][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.454][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.455][FUN] Functions in observer BiodbConfig: [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 [2025-03-25 19:46:07.460][biodb::testContext]
biodb.INFO [2025-03-25 19:46:07.462][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 19:46:07.463][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-03-25 19:46:07.464][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 19:46:07.465][biodb::testContext]
biodb.INFO [2025-03-25 19:46:07.468][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-25 19:46:07.470][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-25 19:46:07.475][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:46:07.477][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-25 19:46:07.478][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-25 19:46:07.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.483][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-25 19:46:07.484][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-25 19:46:07.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.486][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[2025-03-25 19:46:07.487][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-25 19:46:07.488][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-25 19:46:07.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.492][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-25 19:46:07.493][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-25 19:46:07.494][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-25 19:46:07.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.499][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-25 19:46:07.500][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-25 19:46:07.502][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-25 19:46:07.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.506][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-25 19:46:07.507][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-25 19:46:07.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.511][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-25 19:46:07.512][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-25 19:46:07.514][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-25 19:46:07.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.518][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-25 19:46:07.519][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-25 19:46:07.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.523][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[2025-03-25 19:46:07.524][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-25 19:46:07.525][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-25 19:46:07.527][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-25 19:46:07.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.532][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-25 19:46:07.533][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-25 19:46:07.535][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-25 19:46:07.536][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-25 19:46:07.537][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-25 19:46:07.538][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-25 19:46:07.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.543][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-25 19:46:07.545][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-25 19:46:07.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.549][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-25 19:46:07.551][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-25 19:46:07.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.554][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[2025-03-25 19:46:07.555][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-25 19:46:07.557][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-25 19:46:07.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.562][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-25 19:46:07.564][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-25 19:46:07.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.568][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-25 19:46:07.570][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-25 19:46:07.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.582][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-25 19:46:07.583][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-25 19:46:07.610][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-25 19:46:07.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.616][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-25 19:46:07.618][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-25 19:46:07.620][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-25 19:46:07.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.625][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-25 19:46:07.626][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.628][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-25 19:46:07.629][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.630][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:07.632][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.633][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.634][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.635][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.637][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 19:46:07.638][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:07.639][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.640][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-25 19:46:07.642][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:07.643][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.644][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.645][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:46:07.645][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:46:07.645][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:46:07.645][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 19:46:07.645][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 19:46:07.647][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:07.648][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:07.649][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:07.650][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:07.651][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:07.652][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:07.653][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.655][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.656][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:07.657][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:07.658][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.660][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.661][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-25 19:46:07.663][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.664][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 19:46:07.665][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.666][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:07.668][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.669][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.670][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.672][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.673][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 19:46:07.674][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:07.675][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.677][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-25 19:46:07.678][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:07.679][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.680][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.680][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:46:07.680][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:46:07.680][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:46:07.680][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 19:46:07.680][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 19:46:07.681][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:07.682][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:07.684][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:07.685][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:07.686][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:07.687][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:07.688][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.690][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.691][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:07.692][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:07.693][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.695][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.696][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-25 19:46:07.698][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.699][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-25 19:46:07.701][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.702][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:07.703][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.704][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.706][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.707][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.708][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 19:46:07.710][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:07.711][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.712][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-25 19:46:07.714][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:07.715][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.716][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.717][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.719][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:07.720][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:07.722][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:07.723][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:07.724][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:07.725][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:07.726][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.728][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.729][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:07.730][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:07.731][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.733][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.734][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-25 19:46:07.736][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.738][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 19:46:07.739][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.740][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:07.742][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.743][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.744][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.746][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.747][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 19:46:07.748][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:07.749][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.750][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-25 19:46:07.751][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:07.752][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.753][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:07.755][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.756][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 19:46:07.757][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:07.758][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:07.760][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:07.761][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:07.762][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:07.763][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:07.765][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.766][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:07.767][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:07.768][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:07.769][self$setPropertyValue]
biodb.DEBUG[2025-03-25 19:46:07.771][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:46:07.772][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.773][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[2025-03-25 19:46:07.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.816][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[2025-03-25 19:46:07.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:07.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:07.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:07.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:07.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:07.864][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-25 19:46:07.865][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-25 19:46:07.867][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-25 19:46:07.868][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-25 19:46:07.869][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-25 19:46:07.871][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-25 19:46:07.873][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-25 19:46:07.874][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-25 19:46:07.876][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-25 19:46:07.878][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-25 19:46:07.880][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 19:46:07.882][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-25 19:46:07.883][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-25 19:46:07.885][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-25 19:46:07.887][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-25 19:46:07.889][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-25 19:46:07.891][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-25 19:46:07.893][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-25 19:46:07.895][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-25 19:46:07.897][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-25 19:46:07.899][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-25 19:46:07.901][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-25 19:46:07.902][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-25 19:46:07.904][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-25 19:46:07.906][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-25 19:46:07.908][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-25 19:46:07.910][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-25 19:46:07.912][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-25 19:46:07.913][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-25 19:46:07.915][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-25 19:46:07.917][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-25 19:46:07.918][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-25 19:46:07.920][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-25 19:46:07.921][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-25 19:46:07.923][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-25 19:46:07.925][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-25 19:46:07.927][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-25 19:46:07.928][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-25 19:46:07.930][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-25 19:46:07.932][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-25 19:46:07.933][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-25 19:46:07.935][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-25 19:46:07.937][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-25 19:46:07.939][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-25 19:46:07.941][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-25 19:46:07.942][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-25 19:46:07.944][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-25 19:46:07.946][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-25 19:46:07.947][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-25 19:46:07.949][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-25 19:46:07.951][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-25 19:46:07.953][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-25 19:46:07.955][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-25 19:46:07.956][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-25 19:46:07.958][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-25 19:46:07.960][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-25 19:46:07.962][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-25 19:46:07.964][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-25 19:46:07.966][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-25 19:46:07.968][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-25 19:46:07.969][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-25 19:46:07.971][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-25 19:46:07.972][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-25 19:46:07.974][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-25 19:46:07.975][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-25 19:46:07.977][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-25 19:46:07.979][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-25 19:46:07.981][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-25 19:46:07.982][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-25 19:46:07.984][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-25 19:46:07.985][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-25 19:46:07.987][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-25 19:46:07.988][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-25 19:46:07.990][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-25 19:46:07.992][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-25 19:46:07.994][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-25 19:46:07.996][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-25 19:46:07.997][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-25 19:46:07.999][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-25 19:46:08.001][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-25 19:46:08.002][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-25 19:46:08.005][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-25 19:46:08.006][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-25 19:46:08.008][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-25 19:46:08.011][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-25 19:46:08.012][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 19:46:08.013][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.024][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:08.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:08.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.039][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[2025-03-25 19:46:08.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:08.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.053][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.DEBUG[2025-03-25 19:46:08.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:08.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.068][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[2025-03-25 19:46:08.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:08.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:08.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.090][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[2025-03-25 19:46:08.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:08.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.106][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[2025-03-25 19:46:08.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.114][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[2025-03-25 19:46:08.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.121][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[2025-03-25 19:46:08.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.128][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[2025-03-25 19:46:08.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:08.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.144][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[2025-03-25 19:46:08.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 19:46:08.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 19:46:08.154][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-25 19:46:08.156][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-25 19:46:08.159][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:08.160][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-25 19:46:08.161][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:08.163][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 19:46:08.164][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:08.165][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 19:46:08.167][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:08.168][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-25 19:46:08.169][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-25 19:46:08.171][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 19:46:08.172][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:08.173][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-25 19:46:08.174][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 19:46:08.176][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-25 19:46:08.176][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-25 19:46:08.176][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-25 19:46:08.176][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-25 19:46:08.176][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-25 19:46:08.176][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-25 19:46:08.176][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-25 19:46:08.176][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-25 19:46:08.176][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-25 19:46:08.176][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-25 19:46:08.176][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-25 19:46:08.178][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-25 19:46:08.179][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 19:46:08.179][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 19:46:08.179][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 19:46:08.180][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-25 19:46:08.181][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:08.183][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:08.184][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 19:46:08.185][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 19:46:08.186][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 19:46:08.188][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 19:46:08.189][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-25 19:46:08.189][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-25 19:46:08.190][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 19:46:08.191][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 19:46:08.192][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-25 19:46:08.194][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-25 19:46:08.194][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-25 19:46:08.195][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-25 19:46:08.197][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 19:46:08.200][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-25 19:46:08.201][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-25 19:46:08.203][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-25 19:46:08.205][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-25 19:46:08.209][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-25 19:46:08.211][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-25 19:46:08.212][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-25 19:46:08.214][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-25 19:46:08.216][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 19:46:08.217][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 19:46:08.218][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-25 19:46:08.219][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-25 19:46:08.221][biodb::testThat]
biodb.INFO [2025-03-25 19:46:08.222][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-03-25 19:46:08.224][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 19:46:08.225][biodb::testThat]
biodb.DEBUG[2025-03-25 19:46:08.229][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-25 19:46:08.233][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:08.235][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-25 19:46:08.237][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:08.239][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-25 19:46:08.244][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[2025-03-25 19:46:08.248][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-25 19:46:08.250][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-25 19:46:08.252][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:08.254][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-03-25 19:46:08.260][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-03-25 19:46:08.262][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-25 19:46:08.264][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-03-25 19:46:08.278][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 19:46:08.281][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2025-03-25 19:46:08.282][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 19:46:08.284][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-25 19:46:08.286][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-25 19:46:08.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 19:46:08.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 19:46:08.309][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:08.311][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:08.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.314][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:08.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:08.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.321][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:08.323][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:08.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.325][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.327][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-25 19:46:08.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-25 19:46:08.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.333][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:08.335][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:08.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.338][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.339][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 19:46:08.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 19:46:08.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.345][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 19:46:08.347][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 19:46:08.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.349][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.351][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 19:46:08.353][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 19:46:08.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.355][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.357][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:08.359][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:08.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.361][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.363][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:08.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 19:46:08.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.369][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:08.370][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:08.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.373][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.375][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-25 19:46:08.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-25 19:46:08.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.381][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:08.382][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:08.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.385][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:08.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 19:46:08.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.391][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:08.393][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:08.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.395][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 19:46:08.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 19:46:08.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.403][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:08.405][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:08.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.407][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.409][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-25 19:46:08.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-25 19:46:08.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.414][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:08.416][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:08.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.417][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.419][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 19:46:08.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 19:46:08.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:08.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:08.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:08.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:08.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:08.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:08.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 19:46:08.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 19:46:08.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:08.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:08.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:08.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:08.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:08.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:08.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:08.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:08.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:08.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:08.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 19:46:08.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 19:46:08.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 19:46:08.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 19:46:08.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 19:46:08.474][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-03-25 19:46:08.480][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-25 19:46:08.481][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-25 19:46:08.490][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-25 19:46:08.492][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-25 19:46:08.493][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 19:46:08.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 19:46:08.495][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 19:46:08.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 19:46:08.497][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 19:46:08.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 368 ]
> 
> proc.time()
   user  system elapsed 
 19.678   1.188  31.444

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

name	user	system	elapsed
ChebiConn	2.696	1.088	4.731
ChebiEntry	0.361	0.019	0.396