Multiple platform build/check report for BioC 3.21 - CHECK results for biodbChebi on kjohnson3

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"	4777
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences"	4547
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4576
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4528
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4458
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 kjohnson3

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

raw results

Summary

Package: biodbChebi

Version: 1.13.0

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: 2025-03-21 18:24:52 -0400 (Fri, 21 Mar 2025)

EndedAt: 2025-03-21 18:25:24 -0400 (Fri, 21 Mar 2025)

EllapsedTime: 31.4 seconds

RetCode: 0

Status: OK

CheckDir: biodbChebi.Rcheck

Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.13.0.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: aarch64-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 Ventura 13.7.1
* 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-arm64/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: aarch64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-03-21 18:25:14.169][biodb::testContext]
biodb.INFO [2025-03-21 18:25:14.170][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 18:25:14.170][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-21 18:25:14.171][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 18:25:14.171][biodb::testContext]
biodb.INFO [2025-03-21 18:25:14.174][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-21 18:25:14.174][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-21 18:25:14.177][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:14.178][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-21 18:25:14.178][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-21 18:25:14.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.179][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-21 18:25:14.185][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-21 18:25:14.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.186][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-21 18:25:14.186][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-21 18:25:14.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.187][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-21 18:25:14.188][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-21 18:25:14.188][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-21 18:25:14.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.189][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-21 18:25:14.189][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-21 18:25:14.189][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-21 18:25:14.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.190][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-21 18:25:14.191][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-21 18:25:14.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.191][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-21 18:25:14.192][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-21 18:25:14.192][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-21 18:25:14.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.193][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-21 18:25:14.193][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-21 18:25:14.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.194][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-21 18:25:14.194][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-21 18:25:14.195][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-21 18:25:14.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.196][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-21 18:25:14.196][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-21 18:25:14.196][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-21 18:25:14.196][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-21 18:25:14.197][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-21 18:25:14.197][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-21 18:25:14.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.198][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[2025-03-21 18:25:14.198][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-21 18:25:14.198][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-21 18:25:14.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.199][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-21 18:25:14.199][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-21 18:25:14.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.200][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-21 18:25:14.201][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-21 18:25:14.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.201][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-21 18:25:14.202][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-21 18:25:14.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.203][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-21 18:25:14.203][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-21 18:25:14.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.204][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-21 18:25:14.204][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-21 18:25:14.211][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-21 18:25:14.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.212][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[2025-03-21 18:25:14.212][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-21 18:25:14.212][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-21 18:25:14.212][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-21 18:25:14.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.215][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-21 18:25:14.226][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.234][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-21 18:25:14.234][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.235][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:14.235][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.235][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.236][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.236][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.236][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 18:25:14.236][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:14.237][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.237][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-21 18:25:14.237][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:14.237][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.238][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.238][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:14.238][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:14.238][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:14.238][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 18:25:14.238][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 18:25:14.238][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:14.239][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:14.239][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:14.239][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:14.239][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:14.239][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:14.240][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.240][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.240][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:14.240][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:14.241][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.241][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.241][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-21 18:25:14.242][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.242][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 18:25:14.242][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.243][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:14.243][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.243][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.243][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.244][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.244][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 18:25:14.244][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:14.244][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.245][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-21 18:25:14.245][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:14.245][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.245][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.246][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:14.246][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:14.246][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:14.246][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 18:25:14.246][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 18:25:14.246][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:14.246][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:14.246][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:14.247][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:14.247][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:14.247][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:14.247][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.248][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.248][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:14.248][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:14.248][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.249][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.249][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-21 18:25:14.249][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.250][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-21 18:25:14.250][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.250][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:14.250][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.251][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.251][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.251][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.251][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 18:25:14.252][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:14.252][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.252][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-21 18:25:14.252][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:14.253][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.253][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.253][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.253][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:14.254][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:14.254][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:14.254][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:14.254][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:14.255][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:14.255][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.255][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.255][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:14.256][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:14.256][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.256][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.257][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-21 18:25:14.257][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.257][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 18:25:14.258][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.258][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:14.258][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.258][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.259][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.259][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.259][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 18:25:14.259][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:14.260][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.260][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-21 18:25:14.260][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:14.260][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.261][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.261][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.261][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:14.261][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:14.262][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:14.262][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:14.262][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:14.262][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:14.263][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.263][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.263][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:14.263][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:14.264][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.264][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:14.266][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:14.266][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.268][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[2025-03-21 18:25:14.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.276][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[2025-03-21 18:25:14.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.285][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[2025-03-21 18:25:14.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.288][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-21 18:25:14.290][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-21 18:25:14.291][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-21 18:25:14.291][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-21 18:25:14.291][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 18:25:14.292][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 18:25:14.292][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-21 18:25:14.293][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-21 18:25:14.293][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-21 18:25:14.293][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 18:25:14.294][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 18:25:14.294][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-21 18:25:14.294][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-21 18:25:14.295][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-21 18:25:14.295][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-21 18:25:14.295][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 18:25:14.296][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-21 18:25:14.296][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-21 18:25:14.297][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 18:25:14.297][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-21 18:25:14.297][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-21 18:25:14.298][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-21 18:25:14.298][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-21 18:25:14.298][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-21 18:25:14.299][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-21 18:25:14.299][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-21 18:25:14.300][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-21 18:25:14.300][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-21 18:25:14.300][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-21 18:25:14.301][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-21 18:25:14.301][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-21 18:25:14.301][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-21 18:25:14.302][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-21 18:25:14.302][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-21 18:25:14.302][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-21 18:25:14.303][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-21 18:25:14.303][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-21 18:25:14.304][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-21 18:25:14.304][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-21 18:25:14.304][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-21 18:25:14.305][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-21 18:25:14.305][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-21 18:25:14.305][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-21 18:25:14.306][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-21 18:25:14.306][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-21 18:25:14.306][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-21 18:25:14.307][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-21 18:25:14.307][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-21 18:25:14.308][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-21 18:25:14.308][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-21 18:25:14.308][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-21 18:25:14.309][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-21 18:25:14.309][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-21 18:25:14.309][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-21 18:25:14.310][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-21 18:25:14.310][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-21 18:25:14.310][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-21 18:25:14.311][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-21 18:25:14.311][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-21 18:25:14.312][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-21 18:25:14.312][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-21 18:25:14.312][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-21 18:25:14.313][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-21 18:25:14.313][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-21 18:25:14.313][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-21 18:25:14.314][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-21 18:25:14.314][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 18:25:14.314][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 18:25:14.315][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-21 18:25:14.315][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-21 18:25:14.316][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-21 18:25:14.316][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-21 18:25:14.317][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-21 18:25:14.317][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-21 18:25:14.318][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-21 18:25:14.318][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-21 18:25:14.318][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-21 18:25:14.319][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-21 18:25:14.319][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-21 18:25:14.319][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-21 18:25:14.320][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-21 18:25:14.320][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-21 18:25:14.321][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-21 18:25:14.323][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-21 18:25:14.323][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-21 18:25:14.324][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:14.325][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.325][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.356][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.DEBUG[2025-03-21 18:25:14.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:14.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:14.358][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-21 18:25:14.361][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-21 18:25:14.362][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.362][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.362][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.362][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:14.363][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.363][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.363][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.364][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-21 18:25:14.364][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-21 18:25:14.364][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:14.364][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-21 18:25:14.365][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:14.366][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:14.366][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:14.366][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:14.366][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-21 18:25:14.366][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:14.366][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:14.367][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:14.367][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:14.367][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:14.368][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:14.368][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 18:25:14.368][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-21 18:25:14.368][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:14.368][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:14.369][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:14.369][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-21 18:25:14.369][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-21 18:25:14.371][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 18:25:14.371][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 18:25:14.372][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-21 18:25:14.372][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 18:25:14.373][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 18:25:14.373][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 18:25:14.383][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-21 18:25:14.383][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-21 18:25:14.385][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-21 18:25:14.386][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-21 18:25:14.403][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 18:25:14.404][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 18:25:14.404][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-21 18:25:14.404][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-21 18:25:14.408][biodb::testThat]
biodb.INFO [2025-03-21 18:25:14.408][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-03-21 18:25:14.409][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:14.409][biodb::testThat]
biodb.TRACE[2025-03-21 18:25:14.411][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-03-21 18:25:14.412][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:14.413][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:14.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:14.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.422][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:14.426][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.426][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.427][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.432][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:14.433][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:14.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.433][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.442][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:14.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:14.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.443][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:14.443][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:14.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.444][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.444][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:14.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:14.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.445][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.445][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.446][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.447][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.448][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.448][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.449][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.450][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.450][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.451][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.452][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:14.452][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.452][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.453][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:14.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.454][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.454][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.454][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.456][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.456][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.456][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.460][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.461][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:14.462][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.462][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.462][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:14.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.463][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:14.464][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:14.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.464][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.465][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:14.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:14.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:14.488][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-03-21 18:25:14.489][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.504][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.505][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.506][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-21 18:25:14.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-21 18:25:14.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.507][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-21 18:25:14.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-21 18:25:14.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.542][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.542][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.543][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.553][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.554][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.554][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.561][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.562][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.562][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.563][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.563][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.567][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:14.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:14.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.568][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:14.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:14.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.569][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:14.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:14.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.570][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:14.570][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:14.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.571][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.571][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:14.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:14.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.578][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.578][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.579][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.586][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.586][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.587][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.591][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:14.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:14.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.592][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:14.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:14.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.593][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:14.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:14.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.594][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:14.595][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:14.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.595][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.598][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:14.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:14.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.601][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.602][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.603][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.605][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.605][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.605][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.606][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.609][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.610][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.611][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.613][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.613][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.613][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.614][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.617][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:14.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:14.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.618][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:14.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:14.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.619][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:14.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:14.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.620][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:14.620][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:14.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.621][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.621][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:14.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:14.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.628][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.628][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.628][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.632][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.633][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.635][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.635][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.636][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.642][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.642][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.643][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.644][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:14.645][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:14.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.645][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.647][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:14.647][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:14.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.648][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.649][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.649][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.650][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.652][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.652][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.652][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.654][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.654][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.655][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.656][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.657][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.657][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.658][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.659][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.659][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.661][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.661][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.662][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.663][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.663][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.664][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.665][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:14.666][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:14.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.666][ef$get] fields variable is a list.
biodb.INFO [2025-03-21 18:25:14.669][biodb::testThat]
biodb.INFO [2025-03-21 18:25:14.669][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-21 18:25:14.669][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:14.670][biodb::testThat]
biodb.DEBUG[2025-03-21 18:25:14.674][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-03-21 18:25:14.676][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:14.678][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-03-21 18:25:14.678][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:14.678][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-03-21 18:25:14.679][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:14.688][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:14.688][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:14.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:14.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:14.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:14.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:14.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:14.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:14.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:14.693][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.693][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.693][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.699][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:14.700][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:14.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.700][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.700][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:14.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:14.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.701][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:14.702][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:14.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.702][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.702][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:14.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:14.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.703][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.704][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.704][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.705][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.706][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.706][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.707][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.707][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.708][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.708][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:14.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.709][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:14.709][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.710][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.710][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:14.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.711][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.711][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.712][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.713][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.713][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.714][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.714][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.715][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:14.715][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.716][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.716][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:14.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:14.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.717][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:14.717][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:14.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.718][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.718][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:14.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:14.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:14.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:14.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:14.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:14.730][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-03-21 18:25:14.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-21 18:25:14.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-21 18:25:14.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-21 18:25:14.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-21 18:25:14.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-21 18:25:14.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-21 18:25:14.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 18:25:14.736][biodb::testThat]
biodb.INFO [2025-03-21 18:25:14.736][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-21 18:25:14.736][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:14.736][biodb::testThat]
biodb.TRACE[2025-03-21 18:25:14.737][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.737][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.738][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:14.738][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-03-21 18:25:14.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.747][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.748][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:14.750][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-03-21 18:25:14.751][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-21 18:25:14.757][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:14.763][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-21 18:25:14.764][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:14.764][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-21 18:25:14.771][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[2025-03-21 18:25:14.772][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:14.773][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 18:25:14.773][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:14.774][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 18:25:14.775][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-03-21 18:25:14.779][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.779][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:14.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.779][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.780][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.780][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.780][ef$get] fields variable is a list.
biodb.INFO [2025-03-21 18:25:14.782][biodb::testThat]
biodb.INFO [2025-03-21 18:25:14.782][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-03-21 18:25:14.782][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:14.783][biodb::testThat]
biodb.TRACE[2025-03-21 18:25:14.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.792][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:14.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:14.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:14.812][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[2025-03-21 18:25:14.813][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:14.813][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 18:25:14.814][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:14.814][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-03-21 18:25:14.820][biodb::testThat]
biodb.INFO [2025-03-21 18:25:14.820][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-03-21 18:25:14.820][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:14.820][biodb::testThat]
biodb.TRACE[2025-03-21 18:25:14.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.832][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.833][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.834][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-21 18:25:14.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-21 18:25:14.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.835][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-21 18:25:14.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-21 18:25:14.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.843][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:14.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:14.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.846][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:14.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:14.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.849][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.850][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 18:25:14.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.851][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-21 18:25:14.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-21 18:25:14.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:14.852][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-21 18:25:14.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-21 18:25:14.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:14.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 18:25:14.855][biodb::testThat]
biodb.INFO [2025-03-21 18:25:14.855][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-21 18:25:14.856][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:14.856][biodb::testThat]
biodb.INFO [2025-03-21 18:25:14.859][biodb::testThat]
biodb.INFO [2025-03-21 18:25:14.859][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-21 18:25:14.859][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:14.859][biodb::testThat]
biodb.INFO [2025-03-21 18:25:14.862][biodb::testThat]
biodb.INFO [2025-03-21 18:25:14.862][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-21 18:25:14.862][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:14.862][biodb::testThat]
biodb.DEBUG[2025-03-21 18:25:14.864][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-03-21 18:25:15.468][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-03-21 18:25:16.598][biodb::testThat]
biodb.INFO [2025-03-21 18:25:16.599][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-21 18:25:16.599][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:16.599][biodb::testThat]
biodb.DEBUG[2025-03-21 18:25:17.188][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[2025-03-21 18:25:17.547][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.547][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.548][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.548][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.548][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.549][ef$get] fields variable is a list.
biodb.INFO [2025-03-21 18:25:17.550][biodb::testThat]
biodb.INFO [2025-03-21 18:25:17.550][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-03-21 18:25:17.550][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:17.550][biodb::testThat]
biodb.TRACE[2025-03-21 18:25:17.554][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.561][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.562][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.588][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[2025-03-21 18:25:17.589][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:17.589][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 18:25:17.589][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.590][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 18:25:17.614][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[2025-03-21 18:25:17.615][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:17.615][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 18:25:17.615][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.616][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-03-21 18:25:17.620][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 18:25:17.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 18:25:17.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.632][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[2025-03-21 18:25:17.634][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:17.634][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-21 18:25:17.634][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.635][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-21 18:25:17.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.638][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[2025-03-21 18:25:17.638][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-03-21 18:25:17.655][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:17.655][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-03-21 18:25:17.656][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.656][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2025-03-21 18:25:17.656][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:17.657][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:17.657][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:17.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:17.661][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.661][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.662][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.663][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:17.663][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:17.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.664][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.664][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:17.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:17.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.665][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:17.666][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:17.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.666][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.667][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:17.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:17.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.668][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:17.668][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:17.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.668][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:17.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:17.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.670][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.670][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.670][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.671][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.672][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.672][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.672][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.673][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:17.673][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.673][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.674][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:17.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.675][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.675][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.676][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.677][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.677][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.678][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.678][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.681][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.682][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.682][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.682][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.683][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:17.684][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:17.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.684][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.684][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:17.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:17.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.695][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-03-21 18:25:17.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.702][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[2025-03-21 18:25:17.703][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:17.704][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-21 18:25:17.704][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.705][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-21 18:25:17.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:17.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.720][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[2025-03-21 18:25:17.721][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-03-21 18:25:17.721][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:17.721][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-03-21 18:25:17.722][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.722][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2025-03-21 18:25:17.723][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:17.723][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:17.723][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:17.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:17.727][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.727][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.727][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.729][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:17.729][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:17.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.729][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.730][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:17.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:17.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.731][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:17.731][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:17.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.731][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.732][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:17.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:17.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.733][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:17.733][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:17.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.733][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:17.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:17.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.737][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.737][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.738][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.739][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.739][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.740][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.740][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:17.740][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.740][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.741][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:17.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.742][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.742][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.742][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.744][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.744][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.744][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.745][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.746][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.746][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.746][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.747][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.748][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:17.748][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:17.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.748][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.748][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:17.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:17.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.759][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-03-21 18:25:17.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.770][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[2025-03-21 18:25:17.771][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:17.771][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 18:25:17.771][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.772][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 18:25:17.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:17.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:17.781][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-03-21 18:25:17.782][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:17.782][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-03-21 18:25:17.783][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.783][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-03-21 18:25:17.784][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:17.784][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:17.784][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:17.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:17.788][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.788][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.789][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.792][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:17.793][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:17.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.793][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.793][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:17.794][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:17.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.794][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.794][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:17.795][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:17.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.795][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.796][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.796][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.796][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.797][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.797][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.797][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.798][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:17.798][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.798][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.799][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.799][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.799][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.800][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.800][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.800][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.801][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.802][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.802][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.802][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.803][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.804][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:17.804][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:17.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.804][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.814][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-03-21 18:25:17.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:17.835][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-03-21 18:25:17.836][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:17.836][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-03-21 18:25:17.837][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.837][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-03-21 18:25:17.838][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:17.838][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:17.838][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:17.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:17.842][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.843][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.843][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.844][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:17.845][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:17.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.845][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.845][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:17.846][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:17.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.846][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.846][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:17.847][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:17.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.847][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.847][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.848][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.848][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.848][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.849][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.849][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.849][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:17.850][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.850][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.850][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.851][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.851][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.851][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.852][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.852][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.852][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.853][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.854][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.854][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.854][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.858][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:17.858][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:17.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.859][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.868][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-03-21 18:25:17.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:17.876][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-03-21 18:25:17.877][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:17.877][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-03-21 18:25:17.878][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.878][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-03-21 18:25:17.878][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:17.879][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:17.879][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:17.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:17.883][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.883][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.886][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.887][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:17.887][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:17.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.888][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.888][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:17.888][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:17.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.889][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.889][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:17.889][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:17.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.890][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.890][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.890][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.891][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.891][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.891][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.892][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.892][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:17.892][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.893][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.893][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.893][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.894][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.894][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.894][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.895][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.895][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.896][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.896][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.897][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.897][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.898][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:17.898][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:17.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.899][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.908][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-03-21 18:25:17.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.918][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[2025-03-21 18:25:17.919][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-03-21 18:25:17.919][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:17.919][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-03-21 18:25:17.920][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.920][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-03-21 18:25:17.921][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:17.921][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:17.921][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:17.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:17.925][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.925][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.926][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.927][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:17.928][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:17.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.928][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.928][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:17.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:17.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.929][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:17.930][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:17.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.930][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.930][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:17.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:17.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.931][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:17.932][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:17.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.932][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:17.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:17.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.933][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.934][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.934][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.935][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.935][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.936][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.936][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.937][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:17.939][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.940][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.940][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:17.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.941][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.942][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.942][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.943][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.944][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.944][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.944][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.945][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.946][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.946][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.946][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.947][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:17.948][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:17.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.948][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.948][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:17.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:17.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.959][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-03-21 18:25:17.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:17.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.967][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[2025-03-21 18:25:17.968][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-03-21 18:25:17.968][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:17.968][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-03-21 18:25:17.969][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:17.970][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-03-21 18:25:17.970][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:17.970][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:17.970][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:17.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:17.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:17.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:17.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:17.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:17.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:17.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:17.974][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.975][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.975][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:17.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:17.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.976][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:17.977][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:17.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.977][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.977][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:17.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:17.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.978][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:17.979][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:17.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.979][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.980][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:17.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:17.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.980][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:17.981][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:17.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.981][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:17.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:17.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.982][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.983][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.983][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:17.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.984][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.985][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.985][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.985][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:17.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.986][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:17.987][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.987][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.987][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:17.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:17.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.988][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.988][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.989][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:17.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.990][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.990][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.991][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.991][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:17.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:17.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.994][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.995][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.995][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.996][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:17.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:17.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.997][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:17.997][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:17.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.997][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.997][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:17.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:17.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:17.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:17.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:17.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.008][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-03-21 18:25:18.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.014][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-03-21 18:25:18.014][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.015][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-03-21 18:25:18.015][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.016][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-03-21 18:25:18.016][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.016][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.016][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.022][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.023][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.023][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.025][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.025][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.025][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.026][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.026][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.027][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.027][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.027][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.029][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.029][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.029][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.030][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.031][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.031][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.032][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.033][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.033][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.033][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.034][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.034][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.034][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.035][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.035][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.036][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.037][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.037][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.038][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.038][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.039][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.039][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.040][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.040][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.041][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.041][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.042][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.042][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.055][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-03-21 18:25:18.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.061][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-03-21 18:25:18.061][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.061][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-03-21 18:25:18.062][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.063][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-03-21 18:25:18.064][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.064][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.064][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.069][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.069][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.070][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.071][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.071][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.072][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.072][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.073][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.074][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.074][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.074][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.078][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.078][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.079][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.080][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.080][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.081][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.081][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.082][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.083][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.083][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.083][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.084][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.084][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.084][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.085][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.086][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.086][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.088][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.088][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.088][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.089][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.090][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.090][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.090][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.091][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.092][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.092][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.093][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.093][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.108][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-03-21 18:25:18.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.115][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-03-21 18:25:18.115][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.116][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-03-21 18:25:18.117][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.117][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-03-21 18:25:18.118][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.118][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.118][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.123][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.123][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.123][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.125][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.125][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.125][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.126][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.127][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.127][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.128][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.128][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.129][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.129][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.130][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.131][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.131][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.132][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.133][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.133][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.134][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.134][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.134][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.135][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.135][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.140][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.140][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.140][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.142][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.142][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.143][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.144][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.144][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.145][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.145][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.146][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.146][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.147][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.147][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.157][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-03-21 18:25:18.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.165][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-03-21 18:25:18.166][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.166][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-03-21 18:25:18.167][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.168][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-03-21 18:25:18.168][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.169][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.169][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.174][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.174][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.175][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.176][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.176][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.177][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.177][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.178][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.178][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.179][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.179][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.180][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.181][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.181][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.182][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.183][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.183][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.184][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.185][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.185][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.186][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.186][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.186][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.187][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.188][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.188][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.188][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.190][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.190][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.191][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.192][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.192][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.193][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.193][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.197][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.198][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.198][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.198][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.209][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-03-21 18:25:18.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.216][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-03-21 18:25:18.216][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.217][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-03-21 18:25:18.217][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.218][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-03-21 18:25:18.219][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.219][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.219][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.223][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.224][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.227][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.228][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.228][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.229][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.229][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.230][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.231][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.231][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.231][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.232][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.233][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.233][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.235][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.235][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.236][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.237][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.238][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.238][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.238][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.239][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.240][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.241][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.241][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.241][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.243][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.243][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.243][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.245][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.245][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.246][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.246][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.247][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.247][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.248][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.248][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.262][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-03-21 18:25:18.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.269][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[2025-03-21 18:25:18.269][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-03-21 18:25:18.269][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.270][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-03-21 18:25:18.270][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.271][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-03-21 18:25:18.271][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.271][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.272][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.276][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.276][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.277][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.279][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.279][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.279][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.280][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.282][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.282][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.283][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.283][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.284][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.284][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.288][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.288][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.288][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.289][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.289][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.290][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.290][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.290][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.291][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.291][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.291][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.293][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.294][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.294][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.296][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.296][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.297][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.298][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.298][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.299][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.299][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.300][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.300][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.301][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.312][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-03-21 18:25:18.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.322][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-03-21 18:25:18.322][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.323][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-03-21 18:25:18.323][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.324][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-03-21 18:25:18.324][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.324][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.325][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.329][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.329][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.330][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.333][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.333][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.334][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.334][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.335][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.335][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.336][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.336][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.337][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.338][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.338][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.338][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.339][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.339][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.339][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.340][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.340][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.340][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.341][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.341][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.342][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.343][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.344][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.345][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.345][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.346][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.347][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.350][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.351][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.351][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.352][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.352][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.353][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.365][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-03-21 18:25:18.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.371][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-03-21 18:25:18.372][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.372][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-03-21 18:25:18.372][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.373][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-03-21 18:25:18.373][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.374][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.374][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.378][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.379][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.383][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.385][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.385][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.386][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.386][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.387][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.388][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.388][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.388][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.390][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.390][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.391][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.392][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.392][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.393][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.394][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.394][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.395][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.395][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.395][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.396][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.396][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.399][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.399][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.400][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.401][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.402][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.402][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.403][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.404][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.404][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.405][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.405][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.406][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.406][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.407][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.407][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.421][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-03-21 18:25:18.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.428][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-03-21 18:25:18.428][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.429][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-03-21 18:25:18.429][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.430][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-03-21 18:25:18.430][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.431][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.431][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.435][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.435][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.436][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.437][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.438][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.438][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.438][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.439][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.440][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.440][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.441][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.445][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.446][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.447][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.449][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.449][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.450][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.450][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.451][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.452][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.452][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.452][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.453][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.453][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.454][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.455][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.455][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.456][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.457][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.457][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.458][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.460][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.460][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.461][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.461][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.462][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.463][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.463][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.463][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.478][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-03-21 18:25:18.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.485][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-03-21 18:25:18.485][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.486][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-03-21 18:25:18.486][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.487][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-03-21 18:25:18.487][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.488][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.488][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.492][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.493][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.493][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.495][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.495][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.496][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.496][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.497][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.497][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.498][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.498][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.499][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.500][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.500][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.501][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.502][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.502][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.503][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.504][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.504][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.505][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.505][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.505][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.506][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.510][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.510][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.510][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.512][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.512][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.513][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.513][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.514][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.514][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.515][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.515][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.516][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.517][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.517][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.517][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.529][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-03-21 18:25:18.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.538][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-03-21 18:25:18.538][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.539][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-03-21 18:25:18.540][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.540][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-03-21 18:25:18.540][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.541][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.541][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.544][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.545][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.546][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.546][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.548][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.548][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.548][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.549][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.550][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.550][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.551][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.551][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.552][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.552][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.553][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.554][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.555][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.555][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.555][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.556][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.557][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.557][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.557][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.558][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.558][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.559][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.560][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.560][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.560][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.562][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.562][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.562][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.563][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.564][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.564][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.565][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.565][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.569][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.569][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.570][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.570][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.581][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-03-21 18:25:18.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.588][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-03-21 18:25:18.588][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.589][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-03-21 18:25:18.589][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.590][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-03-21 18:25:18.590][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.591][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.591][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.596][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.596][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.596][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.600][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.601][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.602][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.603][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.603][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.603][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.604][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.605][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.605][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.605][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.606][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.607][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.607][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.607][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.609][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.609][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.609][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.610][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.610][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.610][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.611][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.612][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.612][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.612][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.613][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.614][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.614][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.614][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.615][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.616][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.616][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.616][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.617][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.618][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.618][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.618][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.632][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-03-21 18:25:18.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.638][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[2025-03-21 18:25:18.638][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-03-21 18:25:18.638][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.639][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-03-21 18:25:18.639][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.640][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-03-21 18:25:18.640][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.640][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.641][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.645][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.645][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.645][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.647][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.647][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.647][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.648][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.649][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.649][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.649][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.651][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.651][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.652][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.654][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.656][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.656][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.656][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.658][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.658][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.658][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.659][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.659][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.659][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.660][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.661][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.661][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.661][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.663][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.663][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.663][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.664][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.665][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.665][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.665][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.665][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.666][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.667][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.667][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.667][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.680][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-03-21 18:25:18.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.687][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-03-21 18:25:18.687][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.688][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-03-21 18:25:18.688][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.689][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-03-21 18:25:18.689][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.690][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.690][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.695][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.695][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.696][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.697][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.697][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.698][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.698][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.699][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.700][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.700][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.700][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.702][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.702][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.702][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.703][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.704][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.704][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.704][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.706][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.706][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.707][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.707][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.708][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.708][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.709][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.712][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.713][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.714][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.716][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.716][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.716][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.717][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.718][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.718][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.719][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.719][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.720][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.720][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.721][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.721][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.733][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-03-21 18:25:18.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.746][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[2025-03-21 18:25:18.747][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:18.747][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 18:25:18.748][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.748][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 18:25:18.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.752][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.TRACE[2025-03-21 18:25:18.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.758][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[2025-03-21 18:25:18.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.788][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.TRACE[2025-03-21 18:25:18.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.819][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[2025-03-21 18:25:18.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.849][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[2025-03-21 18:25:18.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.922][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[2025-03-21 18:25:18.923][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:18.924][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-03-21 18:25:18.924][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.925][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-03-21 18:25:18.926][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[2025-03-21 18:25:18.927][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:18.927][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-03-21 18:25:18.928][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.928][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-03-21 18:25:18.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.933][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-03-21 18:25:18.933][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.934][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-03-21 18:25:18.934][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.935][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-03-21 18:25:18.935][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:18.939][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:18.939][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:18.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:18.945][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.945][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.946][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.947][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.947][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.948][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.948][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:18.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:18.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.949][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.950][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.950][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.951][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:18.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:18.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.952][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.952][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.953][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:18.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:18.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.954][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.954][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.955][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.955][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:18.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.956][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.956][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.957][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.957][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:18.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.958][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.958][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.959][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.959][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:18.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:18.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.960][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.961][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.961][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.962][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.963][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.963][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.963][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:18.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:18.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.965][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.965][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.965][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.966][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:18.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:18.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.969][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.970][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.970][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.971][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:18.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:18.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:18.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:18.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:18.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.982][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-03-21 18:25:18.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.988][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[2025-03-21 18:25:18.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:18.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:18.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:18.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:18.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:18.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:18.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:18.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:18.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:18.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:18.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:18.994][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-03-21 18:25:18.995][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:18.998][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-03-21 18:25:18.998][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:18.999][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-03-21 18:25:18.999][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:19.000][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:19.000][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:19.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.005][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.005][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.005][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.007][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:19.007][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:19.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.008][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.008][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:19.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:19.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.009][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:19.009][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:19.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.010][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:19.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:19.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.011][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:19.011][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:19.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.012][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:19.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:19.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.013][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:19.014][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:19.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.014][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:19.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:19.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.015][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:19.016][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:19.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.016][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.017][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:19.017][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.017][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.018][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:19.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.019][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.019][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.019][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.021][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:19.021][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:19.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.021][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.022][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:19.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:19.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.023][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:19.023][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:19.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.024][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.024][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:19.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:19.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.028][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:19.028][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:19.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.029][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.029][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:19.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:19.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.040][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-03-21 18:25:19.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.051][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[2025-03-21 18:25:19.052][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.053][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 18:25:19.053][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.054][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 18:25:19.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.167][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[2025-03-21 18:25:19.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.190][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[2025-03-21 18:25:19.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.235][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[2025-03-21 18:25:19.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.272][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-21 18:25:19.273][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.274][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 18:25:19.274][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.274][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 18:25:19.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.278][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[2025-03-21 18:25:19.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.284][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.TRACE[2025-03-21 18:25:19.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.291][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.TRACE[2025-03-21 18:25:19.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.313][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.356][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[2025-03-21 18:25:19.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.405][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-21 18:25:19.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-21 18:25:19.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 18:25:19.409][biodb::testThat]
biodb.INFO [2025-03-21 18:25:19.409][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-03-21 18:25:19.409][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:19.409][biodb::testThat]
biodb.TRACE[2025-03-21 18:25:19.410][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 18:25:19.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 18:25:19.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.418][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[2025-03-21 18:25:19.419][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[2025-03-21 18:25:19.420][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.421][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-21 18:25:19.421][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.421][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-21 18:25:19.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.428][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[2025-03-21 18:25:19.429][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.429][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-21 18:25:19.430][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.430][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-21 18:25:19.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.442][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 18:25:19.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.447][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.447][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.448][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.448][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.448][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.448][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.449][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.449][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.449][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.450][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.450][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.451][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.451][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.451][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.452][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.459][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-21 18:25:19.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.462][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.465][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.465][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.465][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.465][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.466][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.466][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.466][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.467][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.467][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.467][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.468][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.468][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.468][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.468][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.469][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.469][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.472][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 18:25:19.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.473][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.478][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.478][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.478][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.478][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.478][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.479][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.479][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.480][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.480][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.480][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.481][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.481][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.481][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.481][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.482][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.482][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.486][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-21 18:25:19.486][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 18:25:19.486][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 18:25:19.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:19.513][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[2025-03-21 18:25:19.515][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.515][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-21 18:25:19.516][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.516][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-21 18:25:19.517][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[2025-03-21 18:25:19.519][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.519][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-21 18:25:19.519][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.520][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-21 18:25:19.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.541][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[2025-03-21 18:25:19.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.553][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 18:25:19.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.567][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.TRACE[2025-03-21 18:25:19.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.570][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.570][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.570][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.571][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.571][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.571][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.572][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.572][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.573][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.573][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.573][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.574][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.574][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.574][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.574][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.575][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.575][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.580][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-21 18:25:19.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.596][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.596][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.597][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.597][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.597][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.598][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.598][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.599][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.601][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.601][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.604][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.605][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.605][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.606][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.606][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.610][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 18:25:19.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.616][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.616][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.616][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.616][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.617][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.617][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.617][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.618][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.618][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.618][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.619][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.619][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.619][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.619][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.620][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.620][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.620][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.624][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-21 18:25:19.625][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 18:25:19.625][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 18:25:19.628][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-21 18:25:19.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-21 18:25:19.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 18:25:19.630][biodb::testThat]
biodb.INFO [2025-03-21 18:25:19.631][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-03-21 18:25:19.631][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:19.631][biodb::testThat]
biodb.TRACE[2025-03-21 18:25:19.632][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 18:25:19.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 18:25:19.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:19.643][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[2025-03-21 18:25:19.644][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.645][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-21 18:25:19.645][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.646][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-21 18:25:19.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.652][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[2025-03-21 18:25:19.653][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.654][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-21 18:25:19.654][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.654][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-21 18:25:19.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.658][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.TRACE[2025-03-21 18:25:19.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.669][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 18:25:19.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.675][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.675][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.675][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.675][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.675][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.676][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.676][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.676][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.677][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.677][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.677][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.678][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.678][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.678][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.678][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.679][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.679][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.682][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-21 18:25:19.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.687][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.688][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.688][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.688][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.688][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.689][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.689][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.689][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.689][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.690][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.690][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.690][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.691][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.691][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.692][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.692][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.695][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 18:25:19.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.698][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.TRACE[2025-03-21 18:25:19.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.701][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.701][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.701][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.701][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.701][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.702][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.702][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.702][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.703][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.703][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.703][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.704][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.704][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.704][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.704][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.705][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.705][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.708][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-21 18:25:19.708][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 18:25:19.709][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 18:25:19.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.720][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[2025-03-21 18:25:19.720][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[2025-03-21 18:25:19.721][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.722][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-21 18:25:19.722][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.723][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-21 18:25:19.723][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[2025-03-21 18:25:19.724][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.725][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-21 18:25:19.725][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.725][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-21 18:25:19.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.729][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.TRACE[2025-03-21 18:25:19.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.734][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.743][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 18:25:19.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.749][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.749][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.749][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.749][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.750][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.750][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.750][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.751][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.751][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.751][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.751][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.752][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.752][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.752][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.753][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.753][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.759][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-21 18:25:19.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.764][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.764][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.764][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.764][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.765][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.765][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.765][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.766][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.766][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.766][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.766][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.767][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.767][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.767][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.768][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.768][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.771][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 18:25:19.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.776][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.776][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.777][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.777][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.777][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.777][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.777][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.778][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.778][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.778][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.779][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.779][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.779][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.779][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.780][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.780][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.784][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-21 18:25:19.784][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 18:25:19.784][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 18:25:19.787][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-21 18:25:19.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-21 18:25:19.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 18:25:19.789][biodb::testThat]
biodb.INFO [2025-03-21 18:25:19.789][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-03-21 18:25:19.789][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:19.789][biodb::testThat]
biodb.TRACE[2025-03-21 18:25:19.790][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 18:25:19.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 18:25:19.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.799][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[2025-03-21 18:25:19.799][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[2025-03-21 18:25:19.800][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.801][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-21 18:25:19.801][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.801][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-21 18:25:19.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.805][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[2025-03-21 18:25:19.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.808][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[2025-03-21 18:25:19.809][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.809][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-21 18:25:19.810][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.810][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-21 18:25:19.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.813][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.819][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[2025-03-21 18:25:19.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.822][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 18:25:19.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.828][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.828][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.828][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.829][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.829][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.829][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.829][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.830][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.830][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.830][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.831][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.831][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.831][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.832][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.832][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.833][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.836][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-21 18:25:19.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.841][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.841][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.841][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.842][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.842][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.842][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.842][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.843][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.843][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.844][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.844][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.844][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.845][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.845][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.845][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.851][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 18:25:19.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.854][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.TRACE[2025-03-21 18:25:19.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.856][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.856][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.856][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.857][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.857][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.857][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.858][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.858][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.858][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.859][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.859][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.859][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.860][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.860][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.861][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.864][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-21 18:25:19.864][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 18:25:19.864][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 18:25:19.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.878][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.DEBUG[2025-03-21 18:25:19.879][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[2025-03-21 18:25:19.880][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.881][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-21 18:25:19.881][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.881][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-21 18:25:19.883][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[2025-03-21 18:25:19.884][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:19.884][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-21 18:25:19.884][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.885][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-21 18:25:19.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.904][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 18:25:19.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.908][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[2025-03-21 18:25:19.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.910][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.910][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.910][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.911][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.911][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.911][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.911][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.912][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.912][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.913][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.913][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.913][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.914][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.914][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.915][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.918][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-21 18:25:19.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.921][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.924][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.924][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.924][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.925][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.925][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.925][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.925][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.926][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.926][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.926][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.927][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.927][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.927][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.928][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.928][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.928][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.929][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.932][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 18:25:19.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.938][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.938][private$selectFields]
biodb.TRACE[2025-03-21 18:25:19.939][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 18:25:19.939][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 18:25:19.939][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.939][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.940][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.940][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.940][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.940][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.941][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.941][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.941][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 18:25:19.942][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.942][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.942][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.943][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 18:25:19.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.948][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-21 18:25:19.948][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 18:25:19.949][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 18:25:19.955][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-21 18:25:19.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-21 18:25:19.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 18:25:19.957][biodb::testThat]
biodb.INFO [2025-03-21 18:25:19.957][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-03-21 18:25:19.957][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:19.957][biodb::testThat]
biodb.DEBUG[2025-03-21 18:25:19.958][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-21 18:25:19.958][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:19.959][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-21 18:25:19.959][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:19.960][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-03-21 18:25:19.960][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:19.960][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:19.961][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:19.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:19.964][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.965][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.965][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.966][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:19.967][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:19.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.967][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.967][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:19.968][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:19.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.968][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.968][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:19.969][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:19.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.969][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.969][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:19.970][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:19.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.970][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.970][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:19.970][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:19.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.971][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.971][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:19.971][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:19.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.972][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.972][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.972][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:19.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.973][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.973][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:19.973][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:19.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.974][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.974][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:19.974][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:19.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.975][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.975][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:19.975][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:19.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.976][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:19.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:19.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:19.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:19.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:19.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:19.986][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-03-21 18:25:19.986][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-21 18:25:19.989][biodb::testThat]
biodb.INFO [2025-03-21 18:25:19.989][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-21 18:25:19.989][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:19.989][biodb::testThat]
biodb.DEBUG[2025-03-21 18:25:19.992][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-03-21 18:25:19.993][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-03-21 18:25:19.993][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-03-21 18:25:19.993][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-03-21 18:25:19.994][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-03-21 18:25:19.995][loadFileContents] Loaded 3 files from cache: [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-03-21 18:25:19.995][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:19.996][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-03-21 18:25:19.996][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:19.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:19.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:19.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:19.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:19.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:19.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:19.999][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.TRACE[2025-03-21 18:25:20.000][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.000][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.001][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.002][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:20.002][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:20.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.003][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.003][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:20.003][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:20.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.004][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.004][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:20.004][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:20.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.005][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.005][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.005][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.006][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.006][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.006][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.007][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.007][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:20.007][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:20.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.008][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.008][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.008][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.009][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.009][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:20.009][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:20.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.010][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.010][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:20.010][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:20.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.011][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.011][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:20.011][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:20.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.011][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:20.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:20.022][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.022][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.023][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.024][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:20.024][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:20.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.025][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.025][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:20.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:20.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.026][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:20.026][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:20.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.026][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.027][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:20.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:20.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.028][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:20.028][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:20.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.029][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:20.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:20.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.030][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.030][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.030][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.032][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.032][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.032][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.033][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.034][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:20.034][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:20.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.034][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.035][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:20.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:20.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.036][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.036][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.036][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.040][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:20.040][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:20.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.041][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.041][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:20.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:20.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.042][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:20.042][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:20.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.043][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.043][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:20.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:20.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.044][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:20.044][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:20.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.044][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.045][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:20.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:20.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:20.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:20.056][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.056][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.057][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.058][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:20.058][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:20.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.058][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.059][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:20.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:20.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.060][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:20.060][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:20.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.060][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.061][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:20.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:20.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.062][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:20.062][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:20.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.062][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:20.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:20.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.064][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.064][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.064][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.064][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.065][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.066][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.066][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.066][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.067][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:20.068][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:20.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.068][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.068][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:20.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:20.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.069][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.070][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.070][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.071][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:20.072][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:20.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.072][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.072][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:20.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:20.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.073][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:20.074][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:20.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.074][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.074][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:20.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:20.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.075][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:20.075][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:20.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.076][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.076][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:20.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:20.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:20.092][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-03-21 18:25:20.092][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-21 18:25:20.092][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-03-21 18:25:20.097][biodb::testThat]
biodb.INFO [2025-03-21 18:25:20.097][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-03-21 18:25:20.097][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:20.097][biodb::testThat]
biodb.INFO [2025-03-21 18:25:20.105][biodb::testThat]
biodb.INFO [2025-03-21 18:25:20.105][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-03-21 18:25:20.105][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:20.105][biodb::testThat]
biodb.INFO [2025-03-21 18:25:20.108][biodb::testThat]
biodb.INFO [2025-03-21 18:25:20.108][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-03-21 18:25:20.109][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:20.109][biodb::testThat]
biodb.DEBUG[2025-03-21 18:25:20.110][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[2025-03-21 18:25:20.111][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.111][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-03-21 18:25:20.111][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.112][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-03-21 18:25:20.116][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:20.117][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:20.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.117][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.118][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.118][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.118][ef$get] fields variable is a list.
biodb.INFO [2025-03-21 18:25:20.119][biodb::testThat]
biodb.INFO [2025-03-21 18:25:20.119][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-03-21 18:25:20.119][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:20.120][biodb::testThat]
biodb.ERROR[2025-03-21 18:25:20.124][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-03-21 18:25:20.130][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-03-21 18:25:20.137][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-21 18:25:20.138][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-21 18:25:20.138][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-21 18:25:20.138][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-21 18:25:20.139][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.139][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.140][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.140][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.INFO [2025-03-21 18:25:20.143][biodb::testContext]
biodb.INFO [2025-03-21 18:25:20.143][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 18:25:20.144][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-03-21 18:25:20.144][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 18:25:20.144][biodb::testContext]
biodb.INFO [2025-03-21 18:25:20.145][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-21 18:25:20.146][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-21 18:25:20.147][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:20.148][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-21 18:25:20.148][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.149][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-21 18:25:20.149][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.150][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-21 18:25:20.150][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.151][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-21 18:25:20.151][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-21 18:25:20.152][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-21 18:25:20.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.152][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[2025-03-21 18:25:20.153][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-21 18:25:20.153][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-21 18:25:20.153][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.154][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-21 18:25:20.154][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-21 18:25:20.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.157][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-21 18:25:20.158][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-21 18:25:20.158][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-21 18:25:20.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.159][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-21 18:25:20.159][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.160][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-21 18:25:20.161][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-21 18:25:20.161][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.162][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-21 18:25:20.162][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-21 18:25:20.162][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-21 18:25:20.163][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-21 18:25:20.163][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-21 18:25:20.163][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-21 18:25:20.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.164][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-21 18:25:20.164][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-21 18:25:20.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.165][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-21 18:25:20.166][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-21 18:25:20.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.166][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-21 18:25:20.167][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-21 18:25:20.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.168][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-21 18:25:20.168][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-21 18:25:20.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.169][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.DEBUG[2025-03-21 18:25:20.169][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-21 18:25:20.169][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-21 18:25:20.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.170][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-21 18:25:20.170][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-21 18:25:20.176][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-21 18:25:20.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.177][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-21 18:25:20.177][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-21 18:25:20.177][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-21 18:25:20.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.178][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-21 18:25:20.187][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.187][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-21 18:25:20.187][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.188][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.188][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.188][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.188][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.189][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.189][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 18:25:20.189][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.189][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.190][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-21 18:25:20.190][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.190][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.190][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.191][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:20.191][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:20.191][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:20.191][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 18:25:20.191][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 18:25:20.191][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.191][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.191][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.192][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.192][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.192][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.192][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.193][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.193][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.193][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.193][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.194][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.194][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-21 18:25:20.194][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.195][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 18:25:20.195][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.195][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.195][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.196][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.196][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.196][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.196][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 18:25:20.197][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.197][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.197][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-21 18:25:20.197][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.198][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.198][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.198][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:20.198][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:20.198][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:20.198][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 18:25:20.198][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 18:25:20.198][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.199][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.199][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.199][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.199][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.200][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.200][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.200][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.200][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.201][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.201][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.201][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.201][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-21 18:25:20.202][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.202][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-21 18:25:20.202][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.203][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.203][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.203][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.203][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.204][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.204][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 18:25:20.204][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.204][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.205][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-21 18:25:20.205][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.205][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.205][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.206][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.206][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.206][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.206][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.207][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.207][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.207][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.207][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.207][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.208][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.208][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.208][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.208][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.209][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-21 18:25:20.209][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.209][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 18:25:20.210][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.210][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.210][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.210][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.211][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.211][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.211][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 18:25:20.211][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.211][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.212][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-21 18:25:20.212][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.212][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.212][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.213][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.213][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.213][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.213][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.213][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.214][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.214][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.214][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.214][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.215][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.215][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.215][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.215][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.216][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:20.216][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.219][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[2025-03-21 18:25:20.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.226][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.DEBUG[2025-03-21 18:25:20.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.227][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[2025-03-21 18:25:20.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.229][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[2025-03-21 18:25:20.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.234][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[2025-03-21 18:25:20.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.235][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[2025-03-21 18:25:20.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.236][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.DEBUG[2025-03-21 18:25:20.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.239][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-21 18:25:20.239][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-21 18:25:20.239][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-21 18:25:20.240][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-21 18:25:20.240][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 18:25:20.240][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 18:25:20.241][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-21 18:25:20.241][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-21 18:25:20.242][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-21 18:25:20.242][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 18:25:20.242][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 18:25:20.243][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-21 18:25:20.243][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-21 18:25:20.243][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-21 18:25:20.244][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-21 18:25:20.244][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 18:25:20.244][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-21 18:25:20.245][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-21 18:25:20.245][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 18:25:20.246][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-21 18:25:20.246][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-21 18:25:20.246][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-21 18:25:20.247][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-21 18:25:20.247][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-21 18:25:20.247][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-21 18:25:20.248][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-21 18:25:20.248][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-21 18:25:20.248][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-21 18:25:20.249][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-21 18:25:20.249][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-21 18:25:20.250][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-21 18:25:20.250][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-21 18:25:20.250][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-21 18:25:20.251][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-21 18:25:20.251][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-21 18:25:20.251][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-21 18:25:20.252][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-21 18:25:20.252][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-21 18:25:20.252][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-21 18:25:20.253][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-21 18:25:20.253][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-21 18:25:20.253][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-21 18:25:20.254][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-21 18:25:20.254][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-21 18:25:20.254][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-21 18:25:20.255][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-21 18:25:20.255][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-21 18:25:20.256][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-21 18:25:20.256][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-21 18:25:20.256][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-21 18:25:20.257][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-21 18:25:20.257][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-21 18:25:20.257][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-21 18:25:20.257][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-21 18:25:20.258][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-21 18:25:20.258][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-21 18:25:20.258][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-21 18:25:20.259][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-21 18:25:20.259][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-21 18:25:20.260][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-21 18:25:20.260][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-21 18:25:20.260][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-21 18:25:20.261][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-21 18:25:20.261][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-21 18:25:20.261][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-21 18:25:20.262][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-21 18:25:20.262][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 18:25:20.263][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 18:25:20.263][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-21 18:25:20.263][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-21 18:25:20.264][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-21 18:25:20.264][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-21 18:25:20.265][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-21 18:25:20.265][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-21 18:25:20.265][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-21 18:25:20.266][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-21 18:25:20.266][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-21 18:25:20.266][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-21 18:25:20.267][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-21 18:25:20.267][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-21 18:25:20.268][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-21 18:25:20.268][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-21 18:25:20.268][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-21 18:25:20.269][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-21 18:25:20.269][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-21 18:25:20.270][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:20.270][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.270][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.284][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[2025-03-21 18:25:20.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.292][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[2025-03-21 18:25:20.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.293][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.DEBUG[2025-03-21 18:25:20.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.297][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[2025-03-21 18:25:20.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.299][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-21 18:25:20.299][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-21 18:25:20.300][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.300][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.301][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.301][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.301][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.301][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.302][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.302][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-21 18:25:20.302][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-21 18:25:20.302][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-21 18:25:20.303][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-21 18:25:20.304][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.304][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:20.304][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:20.304][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:20.304][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-21 18:25:20.305][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.305][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.305][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.305][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.306][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.306][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.306][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 18:25:20.306][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-21 18:25:20.306][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.307][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.307][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.307][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-21 18:25:20.307][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-21 18:25:20.307][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 18:25:20.308][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 18:25:20.308][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-21 18:25:20.309][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 18:25:20.309][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 18:25:20.310][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 18:25:20.311][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-21 18:25:20.311][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-21 18:25:20.311][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-21 18:25:20.312][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-21 18:25:20.312][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 18:25:20.313][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 18:25:20.313][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-21 18:25:20.313][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-21 18:25:20.314][biodb::testThat]
biodb.INFO [2025-03-21 18:25:20.314][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-03-21 18:25:20.314][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:20.314][biodb::testThat]
biodb.DEBUG[2025-03-21 18:25:20.316][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-21 18:25:20.317][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.317][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-21 18:25:20.318][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.318][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-21 18:25:20.319][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[2025-03-21 18:25:20.321][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.321][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-21 18:25:20.322][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.322][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-21 18:25:20.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.329][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[2025-03-21 18:25:20.330][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.331][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-21 18:25:20.331][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.332][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-21 18:25:20.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.345][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[2025-03-21 18:25:20.346][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.346][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-21 18:25:20.346][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.347][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-21 18:25:20.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.351][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[2025-03-21 18:25:20.352][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.352][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-21 18:25:20.353][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.353][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-21 18:25:20.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.356][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.DEBUG[2025-03-21 18:25:20.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.360][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[2025-03-21 18:25:20.361][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.362][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-21 18:25:20.362][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.363][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-21 18:25:20.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.366][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[2025-03-21 18:25:20.367][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.368][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-21 18:25:20.368][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.368][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-21 18:25:20.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.372][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[2025-03-21 18:25:20.372][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[2025-03-21 18:25:20.373][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.373][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2025-03-21 18:25:20.374][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.374][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2025-03-21 18:25:20.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-21 18:25:20.380][biodb::testThat]
biodb.INFO [2025-03-21 18:25:20.380][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-03-21 18:25:20.380][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:20.380][biodb::testThat]
biodb.DEBUG[2025-03-21 18:25:20.381][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[2025-03-21 18:25:20.383][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.383][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2025-03-21 18:25:20.383][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.384][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2025-03-21 18:25:20.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.389][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[2025-03-21 18:25:20.390][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.390][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2025-03-21 18:25:20.391][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.391][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2025-03-21 18:25:20.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-21 18:25:20.396][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-21 18:25:20.397][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-21 18:25:20.397][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-21 18:25:20.398][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-21 18:25:20.398][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.398][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.399][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-21 18:25:20.400][biodb::testContext]
biodb.INFO [2025-03-21 18:25:20.401][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 18:25:20.401][biodb::testContext] Test context - Test web services
biodb.INFO [2025-03-21 18:25:20.401][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 18:25:20.401][biodb::testContext]
biodb.INFO [2025-03-21 18:25:20.402][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-21 18:25:20.403][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-21 18:25:20.404][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:20.404][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-21 18:25:20.405][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.406][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-21 18:25:20.406][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.407][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-21 18:25:20.407][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.408][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-21 18:25:20.408][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-21 18:25:20.409][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-21 18:25:20.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.409][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-21 18:25:20.410][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-21 18:25:20.410][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.411][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-21 18:25:20.411][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-21 18:25:20.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.412][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[2025-03-21 18:25:20.412][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-21 18:25:20.412][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-21 18:25:20.413][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-21 18:25:20.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.414][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-21 18:25:20.414][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.415][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-21 18:25:20.416][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-21 18:25:20.416][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.417][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-21 18:25:20.417][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-21 18:25:20.418][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-21 18:25:20.418][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-21 18:25:20.418][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-21 18:25:20.419][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-21 18:25:20.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.420][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-21 18:25:20.420][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-21 18:25:20.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.421][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-21 18:25:20.421][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-21 18:25:20.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.422][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-21 18:25:20.422][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-21 18:25:20.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.423][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-21 18:25:20.423][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-21 18:25:20.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.424][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-21 18:25:20.425][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-21 18:25:20.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.426][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-21 18:25:20.426][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-21 18:25:20.431][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-21 18:25:20.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.433][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-21 18:25:20.433][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-21 18:25:20.433][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-21 18:25:20.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.434][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-21 18:25:20.435][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.435][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-21 18:25:20.435][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.436][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.436][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.436][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.436][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.437][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.437][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 18:25:20.437][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.438][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.441][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-21 18:25:20.442][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.442][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.442][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.442][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:20.442][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:20.442][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:20.442][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 18:25:20.442][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 18:25:20.443][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.443][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.443][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.443][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.444][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.444][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.444][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.444][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.445][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.445][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.445][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.445][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.446][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-21 18:25:20.446][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.446][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 18:25:20.447][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.447][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.447][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.447][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.448][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.448][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.448][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 18:25:20.449][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.449][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.449][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-21 18:25:20.449][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.450][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.450][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.450][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:20.450][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:20.450][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:20.450][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 18:25:20.450][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 18:25:20.451][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.451][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.451][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.451][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.452][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.452][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.452][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.452][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.453][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.453][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.453][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.453][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.454][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-21 18:25:20.454][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.454][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-21 18:25:20.455][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.455][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.455][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.455][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.456][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.456][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.456][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 18:25:20.456][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.457][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.457][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-21 18:25:20.457][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.458][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.458][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.458][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.458][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.459][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.459][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.459][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.460][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.460][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.460][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.460][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.461][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.461][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.461][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-21 18:25:20.462][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.462][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 18:25:20.462][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.463][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.463][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.463][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.463][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.464][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.464][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 18:25:20.464][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.465][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.465][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-21 18:25:20.466][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.466][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.466][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.467][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.467][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.467][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.467][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.468][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.468][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.468][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.468][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.469][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.469][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.469][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.469][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.470][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.470][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:20.470][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.486][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[2025-03-21 18:25:20.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.488][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[2025-03-21 18:25:20.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.490][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-21 18:25:20.490][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-21 18:25:20.491][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-21 18:25:20.491][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-21 18:25:20.492][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 18:25:20.492][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 18:25:20.492][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-21 18:25:20.493][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-21 18:25:20.493][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-21 18:25:20.493][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 18:25:20.494][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 18:25:20.494][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-21 18:25:20.494][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-21 18:25:20.495][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-21 18:25:20.495][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-21 18:25:20.496][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 18:25:20.496][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-21 18:25:20.496][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-21 18:25:20.497][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 18:25:20.497][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-21 18:25:20.497][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-21 18:25:20.498][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-21 18:25:20.498][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-21 18:25:20.498][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-21 18:25:20.499][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-21 18:25:20.499][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-21 18:25:20.500][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-21 18:25:20.500][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-21 18:25:20.500][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-21 18:25:20.501][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-21 18:25:20.501][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-21 18:25:20.501][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-21 18:25:20.502][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-21 18:25:20.502][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-21 18:25:20.502][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-21 18:25:20.503][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-21 18:25:20.503][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-21 18:25:20.504][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-21 18:25:20.504][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-21 18:25:20.504][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-21 18:25:20.505][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-21 18:25:20.505][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-21 18:25:20.505][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-21 18:25:20.506][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-21 18:25:20.506][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-21 18:25:20.506][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-21 18:25:20.507][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-21 18:25:20.507][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-21 18:25:20.508][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-21 18:25:20.508][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-21 18:25:20.508][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-21 18:25:20.509][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-21 18:25:20.509][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-21 18:25:20.509][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-21 18:25:20.510][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-21 18:25:20.510][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-21 18:25:20.510][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-21 18:25:20.511][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-21 18:25:20.511][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-21 18:25:20.511][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-21 18:25:20.512][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-21 18:25:20.512][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-21 18:25:20.513][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-21 18:25:20.513][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-21 18:25:20.513][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-21 18:25:20.514][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-21 18:25:20.514][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 18:25:20.514][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 18:25:20.515][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-21 18:25:20.515][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-21 18:25:20.515][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-21 18:25:20.516][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-21 18:25:20.516][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-21 18:25:20.517][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-21 18:25:20.518][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-21 18:25:20.518][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-21 18:25:20.518][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-21 18:25:20.519][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-21 18:25:20.519][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-21 18:25:20.520][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-21 18:25:20.520][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-21 18:25:20.520][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-21 18:25:20.521][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-21 18:25:20.521][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-21 18:25:20.522][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-21 18:25:20.522][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:20.522][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.523][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.523][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[2025-03-21 18:25:20.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.532][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.DEBUG[2025-03-21 18:25:20.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.537][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[2025-03-21 18:25:20.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.542][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[2025-03-21 18:25:20.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.543][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.DEBUG[2025-03-21 18:25:20.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.548][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[2025-03-21 18:25:20.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.553][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-21 18:25:20.553][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-21 18:25:20.554][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.554][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.555][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.555][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.555][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.555][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.556][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.556][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-21 18:25:20.556][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-21 18:25:20.556][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.557][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.557][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-21 18:25:20.557][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.558][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-21 18:25:20.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-21 18:25:20.558][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-21 18:25:20.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-21 18:25:20.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-21 18:25:20.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-21 18:25:20.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-21 18:25:20.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-21 18:25:20.558][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-21 18:25:20.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-21 18:25:20.558][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-21 18:25:20.559][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.560][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:20.560][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:20.560][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:20.562][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-21 18:25:20.562][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.562][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.563][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.563][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.563][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.563][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.564][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 18:25:20.564][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-21 18:25:20.564][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.564][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.564][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.565][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-21 18:25:20.565][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-21 18:25:20.565][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 18:25:20.566][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 18:25:20.566][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-21 18:25:20.566][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 18:25:20.567][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 18:25:20.567][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 18:25:20.568][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-21 18:25:20.569][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-21 18:25:20.569][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-21 18:25:20.569][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-21 18:25:20.570][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 18:25:20.570][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 18:25:20.570][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-21 18:25:20.571][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-21 18:25:20.571][biodb::testThat]
biodb.INFO [2025-03-21 18:25:20.571][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-03-21 18:25:20.572][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:20.572][biodb::testThat]
biodb.DEBUG[2025-03-21 18:25:20.573][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-21 18:25:20.574][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.575][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-21 18:25:20.575][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.576][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-21 18:25:20.577][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[2025-03-21 18:25:20.578][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.579][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-21 18:25:20.579][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.580][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2025-03-21 18:25:20.583][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-21 18:25:20.583][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-21 18:25:20.583][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-21 18:25:20.584][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-21 18:25:20.584][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.584][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.585][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.585][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 [2025-03-21 18:25:20.586][biodb::testContext]
biodb.INFO [2025-03-21 18:25:20.587][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 18:25:20.587][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-03-21 18:25:20.587][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 18:25:20.588][biodb::testContext]
biodb.INFO [2025-03-21 18:25:20.588][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-21 18:25:20.589][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-21 18:25:20.591][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:20.591][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-21 18:25:20.591][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.592][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-21 18:25:20.593][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.593][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.DEBUG[2025-03-21 18:25:20.594][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-21 18:25:20.594][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.595][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-21 18:25:20.595][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-21 18:25:20.595][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-21 18:25:20.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.596][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.DEBUG[2025-03-21 18:25:20.596][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-21 18:25:20.596][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-21 18:25:20.597][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.598][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-21 18:25:20.598][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-21 18:25:20.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.599][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-21 18:25:20.599][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-21 18:25:20.599][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-21 18:25:20.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.600][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-21 18:25:20.601][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.601][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-21 18:25:20.602][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-21 18:25:20.602][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-21 18:25:20.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.603][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-21 18:25:20.603][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-21 18:25:20.603][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-21 18:25:20.604][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-21 18:25:20.604][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-21 18:25:20.604][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-21 18:25:20.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.605][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[2025-03-21 18:25:20.605][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-21 18:25:20.605][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-21 18:25:20.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.606][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-21 18:25:20.607][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-21 18:25:20.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.608][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-21 18:25:20.608][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-21 18:25:20.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.609][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-21 18:25:20.609][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-21 18:25:20.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.610][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-21 18:25:20.610][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-21 18:25:20.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.611][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-21 18:25:20.611][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-21 18:25:20.617][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-21 18:25:20.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.618][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-21 18:25:20.618][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-21 18:25:20.619][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-21 18:25:20.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.620][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-21 18:25:20.620][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.621][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-21 18:25:20.621][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.621][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.621][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.622][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.622][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.622][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.622][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 18:25:20.623][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.623][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.623][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-21 18:25:20.624][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.624][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.624][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.624][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:20.624][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:20.624][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:20.624][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 18:25:20.624][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 18:25:20.625][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.625][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.625][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.625][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.626][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.626][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.626][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.626][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.627][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.627][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.627][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.627][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.628][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-21 18:25:20.628][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.628][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 18:25:20.629][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.629][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.629][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.629][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.630][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.630][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.630][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 18:25:20.630][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.631][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.631][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-21 18:25:20.631][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.631][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.632][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.632][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:20.632][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:20.632][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:20.632][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 18:25:20.632][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 18:25:20.632][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.633][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.633][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.633][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.633][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.633][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.634][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.637][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.637][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.637][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.637][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.638][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.638][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-21 18:25:20.639][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.639][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-21 18:25:20.639][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.639][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.640][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.640][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.640][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.640][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.641][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 18:25:20.641][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.641][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.641][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-21 18:25:20.642][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.642][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.642][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.642][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.642][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.643][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.643][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.644][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.644][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.644][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.645][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.645][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.645][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.645][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-21 18:25:20.646][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.646][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 18:25:20.646][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.647][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.647][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.647][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.648][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.648][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.648][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 18:25:20.649][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.649][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.649][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-21 18:25:20.649][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.650][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.650][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.650][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.650][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 18:25:20.651][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.651][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.651][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.651][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.652][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.652][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.652][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.652][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.652][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.653][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.653][self$setPropertyValue]
biodb.DEBUG[2025-03-21 18:25:20.653][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:20.654][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.655][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.DEBUG[2025-03-21 18:25:20.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.658][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[2025-03-21 18:25:20.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.660][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.DEBUG[2025-03-21 18:25:20.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.663][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[2025-03-21 18:25:20.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.667][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[2025-03-21 18:25:20.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.670][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[2025-03-21 18:25:20.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.674][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-21 18:25:20.674][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-21 18:25:20.674][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-21 18:25:20.675][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-21 18:25:20.675][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 18:25:20.676][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 18:25:20.676][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-21 18:25:20.676][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-21 18:25:20.677][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-21 18:25:20.677][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 18:25:20.677][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 18:25:20.678][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-21 18:25:20.678][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-21 18:25:20.678][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-21 18:25:20.679][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-21 18:25:20.679][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 18:25:20.680][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-21 18:25:20.680][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-21 18:25:20.680][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 18:25:20.681][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-21 18:25:20.681][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-21 18:25:20.681][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-21 18:25:20.682][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-21 18:25:20.682][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-21 18:25:20.682][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-21 18:25:20.683][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-21 18:25:20.683][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-21 18:25:20.684][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-21 18:25:20.684][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-21 18:25:20.684][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-21 18:25:20.685][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-21 18:25:20.685][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-21 18:25:20.685][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-21 18:25:20.686][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-21 18:25:20.686][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-21 18:25:20.686][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-21 18:25:20.687][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-21 18:25:20.687][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-21 18:25:20.688][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-21 18:25:20.688][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-21 18:25:20.688][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-21 18:25:20.689][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-21 18:25:20.689][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-21 18:25:20.689][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-21 18:25:20.690][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-21 18:25:20.690][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-21 18:25:20.690][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-21 18:25:20.691][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-21 18:25:20.691][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-21 18:25:20.692][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-21 18:25:20.692][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-21 18:25:20.692][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-21 18:25:20.693][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-21 18:25:20.693][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-21 18:25:20.693][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-21 18:25:20.694][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-21 18:25:20.694][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-21 18:25:20.694][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-21 18:25:20.695][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-21 18:25:20.695][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-21 18:25:20.695][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-21 18:25:20.696][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-21 18:25:20.696][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-21 18:25:20.697][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-21 18:25:20.697][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-21 18:25:20.697][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-21 18:25:20.698][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 18:25:20.698][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 18:25:20.698][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-21 18:25:20.699][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-21 18:25:20.699][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-21 18:25:20.699][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-21 18:25:20.700][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-21 18:25:20.700][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-21 18:25:20.701][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-21 18:25:20.701][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-21 18:25:20.701][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-21 18:25:20.702][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-21 18:25:20.702][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-21 18:25:20.702][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-21 18:25:20.703][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-21 18:25:20.703][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-21 18:25:20.703][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-21 18:25:20.704][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-21 18:25:20.704][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-21 18:25:20.705][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 18:25:20.705][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.705][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.709][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[2025-03-21 18:25:20.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.710][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[2025-03-21 18:25:20.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.714][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[2025-03-21 18:25:20.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.720][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[2025-03-21 18:25:20.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.725][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[2025-03-21 18:25:20.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.729][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[2025-03-21 18:25:20.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.731][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[2025-03-21 18:25:20.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 18:25:20.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 18:25:20.736][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-21 18:25:20.737][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-21 18:25:20.737][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.737][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.738][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.738][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 18:25:20.738][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.738][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.739][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.739][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-21 18:25:20.739][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-21 18:25:20.739][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-21 18:25:20.740][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-21 18:25:20.741][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-21 18:25:20.741][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 18:25:20.741][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 18:25:20.741][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 18:25:20.741][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-21 18:25:20.741][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.742][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.742][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 18:25:20.742][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 18:25:20.742][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 18:25:20.743][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 18:25:20.743][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 18:25:20.743][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-21 18:25:20.743][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 18:25:20.743][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 18:25:20.744][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-21 18:25:20.744][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-21 18:25:20.744][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-21 18:25:20.744][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 18:25:20.745][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 18:25:20.745][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-21 18:25:20.746][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 18:25:20.746][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 18:25:20.746][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 18:25:20.747][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-21 18:25:20.748][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-21 18:25:20.748][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-21 18:25:20.748][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-21 18:25:20.749][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 18:25:20.749][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 18:25:20.749][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-21 18:25:20.750][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-21 18:25:20.750][biodb::testThat]
biodb.INFO [2025-03-21 18:25:20.750][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-03-21 18:25:20.751][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 18:25:20.751][biodb::testThat]
biodb.DEBUG[2025-03-21 18:25:20.752][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-21 18:25:20.753][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.753][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-21 18:25:20.754][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.754][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-21 18:25:20.755][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[2025-03-21 18:25:20.756][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 18:25:20.757][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-21 18:25:20.757][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.757][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-03-21 18:25:20.759][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-03-21 18:25:20.759][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 18:25:20.760][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-03-21 18:25:20.760][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 18:25:20.761][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2025-03-21 18:25:20.762][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 18:25:20.762][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 18:25:20.763][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 18:25:20.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 18:25:20.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 18:25:20.768][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.768][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.769][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.770][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:20.770][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:20.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.771][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.771][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 18:25:20.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 18:25:20.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.772][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:20.773][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:20.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.773][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.774][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 18:25:20.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 18:25:20.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.775][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 18:25:20.775][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 18:25:20.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.775][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.776][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.776][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 18:25:20.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.777][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.777][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.777][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.778][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.778][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 18:25:20.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.779][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:20.779][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:20.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.780][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.780][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 18:25:20.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 18:25:20.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.781][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.782][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.782][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 18:25:20.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.784][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:20.784][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:20.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.784][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 18:25:20.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 18:25:20.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.786][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:20.786][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:20.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.787][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.787][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 18:25:20.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 18:25:20.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.788][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:20.789][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:20.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.789][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.789][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 18:25:20.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 18:25:20.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 18:25:20.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 18:25:20.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 18:25:20.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 18:25:20.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 18:25:20.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 18:25:20.801][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-03-21 18:25:20.802][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-21 18:25:20.802][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-21 18:25:20.803][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-21 18:25:20.803][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-21 18:25:20.803][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 18:25:20.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 18:25:20.804][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 18:25:20.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 18:25:20.804][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 18:25:20.804][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 358 ]
> 
> proc.time()
   user  system elapsed 
  4.462   0.299   7.407

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

name	user	system	elapsed
ChebiConn	0.753	0.279	2.335
ChebiEntry	0.108	0.007	0.118