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This page was generated on 2025-01-16 12:07 -0500 (Thu, 16 Jan 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4746
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4489
merida1macOS 12.7.5 Montereyx86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4517
kjohnson1macOS 13.6.6 Venturaarm644.4.2 (2024-10-31) -- "Pile of Leaves" 4469
taishanLinux (openEuler 24.03 LTS)aarch644.4.2 (2024-10-31) -- "Pile of Leaves" 4387
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 202/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.12.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-01-13 13:00 -0500 (Mon, 13 Jan 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_20
git_last_commit: e6b963e
git_last_commit_date: 2024-10-29 11:04:35 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    NA  

CHECK results for biodbChebi on merida1

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

raw results


Summary

Package: biodbChebi
Version: 1.12.0
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_1.12.0.tar.gz
StartedAt: 2025-01-14 00:11:44 -0500 (Tue, 14 Jan 2025)
EndedAt: 2025-01-14 00:14:39 -0500 (Tue, 14 Jan 2025)
EllapsedTime: 175.1 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_1.12.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/biodbChebi.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.12.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
           user system elapsed
ChebiConn 4.781  1.315  13.798
* 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/4.4-x86_64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.4.2 (2024-10-31) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-01-14 00:13:25.303][biodb::testContext]
biodb.INFO [2025-01-14 00:13:25.311][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 00:13:25.314][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-14 00:13:25.317][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 00:13:25.320][biodb::testContext]
biodb.INFO [2025-01-14 00:13:25.335][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-14 00:13:25.340][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-14 00:13:25.357][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:13:25.360][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-14 00:13:25.363][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-14 00:13:25.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.374][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-14 00:13:25.431][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-14 00:13:25.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.442][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-14 00:13:25.445][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-14 00:13:25.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.456][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-14 00:13:25.459][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-14 00:13:25.462][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-14 00:13:25.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.489][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-14 00:13:25.491][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-14 00:13:25.494][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-14 00:13:25.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.503][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-14 00:13:25.506][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-14 00:13:25.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.515][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-14 00:13:25.517][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-14 00:13:25.520][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-14 00:13:25.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.529][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-14 00:13:25.531][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-14 00:13:25.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.537][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[2025-01-14 00:13:25.539][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-14 00:13:25.541][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-14 00:13:25.544][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-14 00:13:25.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.553][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-14 00:13:25.555][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-14 00:13:25.558][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-14 00:13:25.560][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-14 00:13:25.562][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-14 00:13:25.565][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-14 00:13:25.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.573][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-14 00:13:25.576][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-14 00:13:25.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.584][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-14 00:13:25.587][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-14 00:13:25.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.593][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[2025-01-14 00:13:25.595][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-14 00:13:25.598][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-14 00:13:25.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.605][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-14 00:13:25.607][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-14 00:13:25.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.614][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-14 00:13:25.616][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-14 00:13:25.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.624][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-14 00:13:25.626][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-14 00:13:25.650][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-14 00:13:25.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.656][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[2025-01-14 00:13:25.658][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-14 00:13:25.661][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-14 00:13:25.663][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-14 00:13:25.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:25.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:25.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:25.676][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-14 00:13:25.766][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:25.806][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-14 00:13:25.817][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:25.820][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:13:25.822][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:25.824][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:13:25.827][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:25.829][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:13:25.831][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 00:13:25.834][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:13:25.836][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:25.838][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-14 00:13:25.841][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:13:25.843][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:25.846][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:25.848][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:13:25.848][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:13:25.848][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:13:25.848][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 00:13:25.848][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 00:13:25.859][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:13:25.862][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:13:25.864][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:13:25.866][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:13:25.868][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:13:25.870][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:13:25.873][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:13:25.875][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:25.878][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:13:25.879][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:13:25.882][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:25.884][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:25.887][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-14 00:13:25.892][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:25.894][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 00:13:25.896][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:25.899][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:13:25.901][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:25.904][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:13:25.907][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:25.909][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:13:25.911][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 00:13:25.914][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:13:25.916][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:25.919][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-14 00:13:25.921][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:13:25.924][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:25.926][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:25.929][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:13:25.929][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:13:25.929][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:13:25.929][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 00:13:25.929][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 00:13:25.931][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:13:25.934][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:13:25.936][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:13:25.938][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:13:25.940][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:13:25.942][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:13:25.944][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:13:25.947][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:25.949][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:13:25.951][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:13:25.953][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:25.955][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:25.958][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-14 00:13:25.962][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:25.964][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-14 00:13:25.966][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:25.969][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:13:25.972][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:25.975][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:13:25.977][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:25.988][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:13:25.991][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 00:13:25.993][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:13:25.996][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:25.998][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-14 00:13:26.001][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:13:26.004][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:26.007][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:26.010][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:26.012][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:13:26.015][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:13:26.017][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:13:26.019][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:13:26.022][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:13:26.024][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:13:26.027][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:13:26.029][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:26.031][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:13:26.033][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:13:26.035][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:26.038][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:26.042][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-14 00:13:26.046][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:26.049][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 00:13:26.051][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:26.054][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:13:26.056][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:26.059][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:13:26.061][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:26.064][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:13:26.067][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 00:13:26.069][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:13:26.072][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:26.074][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-14 00:13:26.076][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:13:26.079][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:26.082][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:26.084][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:26.087][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:13:26.089][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:13:26.091][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:13:26.094][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:13:26.096][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:13:26.098][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:13:26.100][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:13:26.103][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:26.105][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:13:26.107][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:13:26.110][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:26.112][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:13:26.120][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:13:26.123][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.157][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[2025-01-14 00:13:26.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.178][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[2025-01-14 00:13:26.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.189][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[2025-01-14 00:13:26.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.200][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[2025-01-14 00:13:26.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.221][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[2025-01-14 00:13:26.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.274][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[2025-01-14 00:13:26.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.285][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[2025-01-14 00:13:26.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.295][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[2025-01-14 00:13:26.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.309][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-14 00:13:26.320][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-14 00:13:26.323][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-14 00:13:26.326][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-14 00:13:26.329][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-14 00:13:26.333][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-14 00:13:26.336][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-14 00:13:26.340][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-14 00:13:26.343][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-14 00:13:26.347][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-14 00:13:26.350][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 00:13:26.354][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-14 00:13:26.357][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-14 00:13:26.360][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-14 00:13:26.364][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-14 00:13:26.368][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-14 00:13:26.371][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-14 00:13:26.374][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-14 00:13:26.378][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-14 00:13:26.381][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-14 00:13:26.384][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-14 00:13:26.388][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-14 00:13:26.392][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-14 00:13:26.397][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-14 00:13:26.401][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-14 00:13:26.404][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-14 00:13:26.408][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-14 00:13:26.411][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-14 00:13:26.415][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-14 00:13:26.420][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-14 00:13:26.423][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-14 00:13:26.426][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-14 00:13:26.430][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-14 00:13:26.434][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-14 00:13:26.437][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-14 00:13:26.441][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-14 00:13:26.444][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-14 00:13:26.448][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-14 00:13:26.451][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-14 00:13:26.455][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-14 00:13:26.458][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-14 00:13:26.463][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-14 00:13:26.475][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-14 00:13:26.479][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-14 00:13:26.483][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-14 00:13:26.486][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-14 00:13:26.489][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-14 00:13:26.493][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-14 00:13:26.496][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-14 00:13:26.500][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-14 00:13:26.504][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-14 00:13:26.508][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-14 00:13:26.511][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-14 00:13:26.514][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-14 00:13:26.518][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-14 00:13:26.521][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-14 00:13:26.524][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-14 00:13:26.527][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-14 00:13:26.531][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-14 00:13:26.534][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-14 00:13:26.537][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-14 00:13:26.540][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-14 00:13:26.543][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-14 00:13:26.547][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-14 00:13:26.550][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-14 00:13:26.554][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-14 00:13:26.558][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-14 00:13:26.561][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-14 00:13:26.564][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-14 00:13:26.568][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-14 00:13:26.572][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-14 00:13:26.575][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-14 00:13:26.579][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-14 00:13:26.583][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-14 00:13:26.586][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-14 00:13:26.589][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-14 00:13:26.593][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-14 00:13:26.596][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-14 00:13:26.600][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-14 00:13:26.603][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-14 00:13:26.607][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-14 00:13:26.610][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-14 00:13:26.614][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-14 00:13:26.629][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-14 00:13:26.632][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-14 00:13:26.638][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:13:26.641][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.645][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.671][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[2025-01-14 00:13:26.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.687][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[2025-01-14 00:13:26.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.717][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[2025-01-14 00:13:26.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.731][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[2025-01-14 00:13:26.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.775][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.DEBUG[2025-01-14 00:13:26.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:13:26.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:26.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:26.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:26.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:26.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:26.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:26.923][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-14 00:13:26.956][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-14 00:13:26.961][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:26.963][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-14 00:13:26.965][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:26.968][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:13:26.971][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:26.973][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:13:26.976][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:26.978][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-14 00:13:26.981][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-14 00:13:26.983][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:13:26.985][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:26.988][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-14 00:13:26.990][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:13:26.992][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-14 00:13:26.992][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-14 00:13:26.992][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-14 00:13:26.992][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-14 00:13:26.992][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-14 00:13:26.992][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-14 00:13:26.992][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-14 00:13:26.992][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-14 00:13:26.992][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-14 00:13:26.992][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-14 00:13:26.992][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-14 00:13:26.995][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-14 00:13:26.997][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:13:26.997][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:13:26.997][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:13:26.999][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-14 00:13:27.001][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:13:27.003][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:13:27.006][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:13:27.008][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:13:27.010][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:13:27.012][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:13:27.014][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-14 00:13:27.014][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-14 00:13:27.017][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:13:27.019][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:13:27.021][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-14 00:13:27.024][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-14 00:13:27.024][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-14 00:13:27.040][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-14 00:13:27.044][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 00:13:27.048][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-14 00:13:27.051][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-14 00:13:27.054][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-14 00:13:27.058][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-14 00:13:27.103][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-14 00:13:27.106][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-14 00:13:27.114][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-14 00:13:27.122][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-14 00:13:27.132][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 00:13:27.135][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 00:13:27.138][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-14 00:13:27.141][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-14 00:13:27.163][biodb::testThat]
biodb.INFO [2025-01-14 00:13:27.166][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-01-14 00:13:27.169][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:27.171][biodb::testThat]
biodb.TRACE[2025-01-14 00:13:27.180][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-01-14 00:13:27.184][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:27.191][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:27.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:27.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:27.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:27.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:27.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:27.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:27.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:27.264][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:27.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:27.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.271][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:27.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:27.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.316][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:27.319][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:27.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.323][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.401][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:27.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:27.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.411][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:27.413][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:27.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.417][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.435][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:27.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:27.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.445][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:27.448][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:27.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.452][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:27.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:27.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.464][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:27.467][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:27.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.471][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.474][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:27.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:27.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.485][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:27.487][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:27.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.492][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.494][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:27.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:27.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.504][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:27.507][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:27.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.511][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.514][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:27.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:27.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.522][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:27.524][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:27.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.527][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:27.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:27.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.539][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:27.542][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:27.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.546][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.549][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:27.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:27.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.559][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:27.562][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:27.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.567][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.569][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:27.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:27.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.580][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:27.582][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:27.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.587][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.590][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:27.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:27.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:27.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:27.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:27.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:27.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:27.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:27.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:27.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:27.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:27.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:27.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:27.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:27.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:27.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:27.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:27.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:27.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:27.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:27.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:27.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:27.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:27.791][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-01-14 00:13:27.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:27.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:27.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.846][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:27.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:27.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:27.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:27.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:27.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:27.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:27.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:27.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:27.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:27.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.965][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 00:13:27.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 00:13:27.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.977][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 00:13:27.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 00:13:27.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.987][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-14 00:13:27.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-14 00:13:27.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:27.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:27.998][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-14 00:13:28.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-14 00:13:28.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.295][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.297][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.301][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:28.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:28.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.360][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.363][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.367][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:28.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:28.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:28.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:28.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:28.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.415][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:28.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:28.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.424][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:28.427][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:28.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.431][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.433][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:28.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:28.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.461][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:28.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:28.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.471][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:28.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:28.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.479][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:28.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:28.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.487][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:28.489][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:28.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.494][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.496][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:28.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:28.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:28.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:28.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:28.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:28.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:28.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:28.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.559][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:28.562][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:28.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.567][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:28.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:28.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:28.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:28.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:28.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:28.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:28.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:28.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.628][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:28.631][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:28.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.636][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:28.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:28.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.668][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:28.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:28.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.677][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:28.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:28.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.697][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:28.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:28.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.709][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:28.714][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:28.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.719][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.721][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:28.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:28.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.754][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-14 00:13:28.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:28.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.765][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-14 00:13:28.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:28.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.774][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-14 00:13:28.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:28.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.784][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-14 00:13:28.786][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:28.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.791][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.794][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-14 00:13:28.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:28.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.823][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:28.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:28.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.835][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:28.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:28.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.847][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:28.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:28.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.860][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:28.863][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:28.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.868][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.873][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:28.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:28.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.908][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:28.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:28.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.919][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:28.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:28.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.933][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:28.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:28.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.943][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:28.945][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:28.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.950][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.954][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:28.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:28.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:28.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:28.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:28.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:28.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.000][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.022][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.025][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.029][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:29.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:29.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:29.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:29.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.087][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:29.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:29.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.101][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:29.103][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:29.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.108][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:29.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:29.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.161][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:29.166][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:29.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.170][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.181][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:29.184][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:29.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.188][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.203][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:29.206][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:29.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.211][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.222][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:29.225][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:29.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.232][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.245][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.248][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.253][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.269][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:29.272][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:29.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.276][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.287][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:29.290][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:29.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.294][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.307][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:29.310][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:29.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.314][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.326][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-01-14 00:13:29.329][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:29.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.334][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.345][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:29.347][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:29.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.352][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.366][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:29.368][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:29.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.374][ef$get] fields variable is a list.
biodb.INFO [2025-01-14 00:13:29.393][biodb::testThat]
biodb.INFO [2025-01-14 00:13:29.396][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-14 00:13:29.398][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:29.400][biodb::testThat]
biodb.DEBUG[2025-01-14 00:13:29.437][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-01-14 00:13:29.453][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:29.463][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-01-14 00:13:29.466][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:29.470][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-01-14 00:13:29.473][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:29.542][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:29.544][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:29.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:29.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:29.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:29.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:29.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:29.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:29.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:29.590][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:29.594][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:29.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.599][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:29.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:29.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.658][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:29.660][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:29.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.664][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.668][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:29.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:29.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.689][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:29.692][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:29.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.696][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.699][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:29.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:29.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.709][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:29.712][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:29.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.717][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:29.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:29.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.732][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.735][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.739][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:29.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.760][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:29.763][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:29.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.768][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.771][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:29.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:29.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.785][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:29.789][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:29.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.793][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.798][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:29.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:29.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.809][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:29.812][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:29.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.816][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:29.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:29.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.832][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:29.834][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:29.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.838][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.841][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:29.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:29.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.852][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:29.855][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:29.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.859][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.864][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:29.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:29.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.877][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:29.880][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:29.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.884][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.887][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:29.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:29.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:29.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:29.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:29.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:29.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:29.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:29.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:29.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:29.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:29.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:29.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:29.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:29.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:29.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:29.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:29.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:29.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:29.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:29.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:29.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:29.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:30.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:30.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:30.021][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-01-14 00:13:30.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-14 00:13:30.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-14 00:13:30.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-14 00:13:30.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-14 00:13:30.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-14 00:13:30.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-14 00:13:30.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-14 00:13:30.075][biodb::testThat]
biodb.INFO [2025-01-14 00:13:30.077][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-14 00:13:30.079][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:30.081][biodb::testThat]
biodb.TRACE[2025-01-14 00:13:30.089][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:30.091][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:30.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.096][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:30.099][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-01-14 00:13:30.178][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:30.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:30.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.189][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:30.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:30.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:30.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:30.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:30.224][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-01-14 00:13:30.236][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-14 00:13:30.307][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:30.353][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-14 00:13:30.356][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:30.359][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-14 00:13:30.437][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[2025-01-14 00:13:30.444][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:30.447][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-14 00:13:30.450][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:30.453][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-14 00:13:30.458][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-01-14 00:13:30.488][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:30.491][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:30.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.496][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.498][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:30.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:30.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.507][ef$get] fields variable is a list.
biodb.INFO [2025-01-14 00:13:30.518][biodb::testThat]
biodb.INFO [2025-01-14 00:13:30.520][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-01-14 00:13:30.523][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:30.527][biodb::testThat]
biodb.TRACE[2025-01-14 00:13:30.597][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:30.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:30.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.607][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:30.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:30.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:30.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:30.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:30.771][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[2025-01-14 00:13:30.780][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:30.782][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-14 00:13:30.786][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:30.789][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-01-14 00:13:30.839][biodb::testThat]
biodb.INFO [2025-01-14 00:13:30.846][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-01-14 00:13:30.849][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:30.851][biodb::testThat]
biodb.TRACE[2025-01-14 00:13:30.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:30.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:30.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:30.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:30.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:30.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:30.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:30.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:30.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:30.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:30.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:30.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:30.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.977][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 00:13:30.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 00:13:30.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.989][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 00:13:30.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 00:13:30.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:30.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:30.999][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-14 00:13:31.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-14 00:13:31.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:31.010][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-14 00:13:31.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-14 00:13:31.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:31.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:31.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:31.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:31.080][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:31.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:31.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:31.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:31.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:31.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:31.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:31.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:31.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:31.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:31.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:31.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:31.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:31.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:31.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:31.131][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 00:13:31.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 00:13:31.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:31.141][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-14 00:13:31.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-14 00:13:31.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:31.151][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-14 00:13:31.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-14 00:13:31.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:31.161][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-14 00:13:31.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-14 00:13:31.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:31.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-14 00:13:31.181][biodb::testThat]
biodb.INFO [2025-01-14 00:13:31.184][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-14 00:13:31.186][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:31.188][biodb::testThat]
biodb.INFO [2025-01-14 00:13:31.215][biodb::testThat]
biodb.INFO [2025-01-14 00:13:31.218][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-14 00:13:31.220][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:31.222][biodb::testThat]
biodb.INFO [2025-01-14 00:13:31.241][biodb::testThat]
biodb.INFO [2025-01-14 00:13:31.244][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-14 00:13:31.246][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:31.248][biodb::testThat]
biodb.DEBUG[2025-01-14 00:13:31.256][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-01-14 00:13:32.470][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-01-14 00:13:33.646][biodb::testThat]
biodb.INFO [2025-01-14 00:13:33.650][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-14 00:13:33.653][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:33.655][biodb::testThat]
biodb.DEBUG[2025-01-14 00:13:34.181][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[2025-01-14 00:13:34.662][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:34.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:34.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:34.668][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:34.671][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:34.673][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:34.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:34.678][ef$get] fields variable is a list.
biodb.INFO [2025-01-14 00:13:34.681][biodb::testThat]
biodb.INFO [2025-01-14 00:13:34.684][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-01-14 00:13:34.686][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:34.688][biodb::testThat]
biodb.TRACE[2025-01-14 00:13:34.715][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:34.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:34.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:34.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:34.725][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:34.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:34.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:34.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:34.736][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:34.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:34.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:34.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:34.942][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[2025-01-14 00:13:34.950][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:34.969][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-14 00:13:34.973][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:34.976][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-14 00:13:35.132][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[2025-01-14 00:13:35.140][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:35.144][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-14 00:13:35.147][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:35.150][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-01-14 00:13:35.188][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 00:13:35.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 00:13:35.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:35.285][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[2025-01-14 00:13:35.300][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:35.304][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-14 00:13:35.311][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:35.335][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-14 00:13:35.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:35.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:35.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:35.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:35.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:35.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:35.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:35.364][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-01-14 00:13:35.498][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:35.502][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-01-14 00:13:35.505][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:35.509][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2025-01-14 00:13:35.512][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:35.515][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:35.518][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:35.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:35.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:35.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:35.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:35.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:35.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:35.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:35.549][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:35.562][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:35.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.567][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:35.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:35.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.580][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:35.582][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:35.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.586][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.589][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:35.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:35.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.599][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:35.601][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:35.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.605][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.609][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:35.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:35.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.618][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:35.621][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:35.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.625][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:35.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:35.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.639][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:35.642][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:35.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.646][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.648][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:35.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:35.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.658][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:35.661][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:35.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.666][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.668][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:35.671][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.676][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.679][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:35.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.689][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:35.691][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:35.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.696][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:35.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:35.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.710][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:35.713][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:35.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.718][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:35.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:35.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.730][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:35.733][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:35.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.738][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.740][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:35.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:35.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.751][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:35.754][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:35.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.758][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.761][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:35.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:35.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:35.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:35.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:35.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:35.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:35.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:35.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:35.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:35.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:35.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:35.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:35.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:35.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:35.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:35.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:35.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:35.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:35.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:35.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:35.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:35.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:35.882][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-01-14 00:13:35.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:35.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:35.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:35.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:35.945][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[2025-01-14 00:13:35.954][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:35.957][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-14 00:13:35.961][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:35.965][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-14 00:13:36.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:36.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:36.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:36.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:36.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:36.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:36.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:36.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:36.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:36.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:36.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:36.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:36.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:36.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:36.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:36.087][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-01-14 00:13:36.090][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:36.093][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-01-14 00:13:36.098][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:36.101][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2025-01-14 00:13:36.104][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:36.107][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:36.110][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:36.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:36.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:36.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:36.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:36.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:36.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:36.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:36.151][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.154][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.158][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.171][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:36.173][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:36.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.178][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.181][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:36.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:36.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.191][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:36.194][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:36.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.199][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:36.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:36.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.212][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:36.214][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:36.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.219][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:36.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:36.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.233][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:36.236][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:36.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.241][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:36.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:36.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.253][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:36.256][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:36.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.262][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.265][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:36.269][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.274][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.277][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:36.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.291][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:36.293][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:36.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.298][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:36.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:36.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.310][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:36.312][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:36.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.317][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.320][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:36.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:36.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.330][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:36.333][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:36.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.337][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.340][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:36.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:36.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.351][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:36.354][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:36.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.359][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.362][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:36.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:36.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:36.479][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-01-14 00:13:36.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:36.556][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[2025-01-14 00:13:36.564][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:36.567][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-14 00:13:36.570][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:36.574][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-14 00:13:36.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:36.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:36.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:36.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:36.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:36.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:36.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:36.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:36.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:36.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:36.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:36.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:36.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:36.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:36.656][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[2025-01-14 00:13:36.659][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-01-14 00:13:36.662][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:36.666][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-01-14 00:13:36.670][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:36.674][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-01-14 00:13:36.676][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:36.679][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:36.682][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:36.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:36.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:36.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:36.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:36.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:36.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:36.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:36.724][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.727][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.732][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.745][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:36.747][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:36.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.752][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.755][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:36.758][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:36.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.763][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.767][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:36.770][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:36.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.775][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.778][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:36.780][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:36.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.785][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.788][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:36.790][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:36.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.795][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.798][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:36.801][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.806][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.809][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:36.812][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:36.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.816][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.819][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:36.822][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:36.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.826][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.829][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:36.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:36.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.839][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:36.842][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:36.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.846][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.849][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:36.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:36.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.859][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:36.861][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:36.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.866][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:36.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:36.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:36.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:36.966][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-01-14 00:13:36.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:36.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:36.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:36.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:37.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:37.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:37.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:37.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:37.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:37.067][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:37.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:37.072][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-01-14 00:13:37.075][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:37.079][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-01-14 00:13:37.086][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:37.095][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-01-14 00:13:37.098][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:37.101][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:37.104][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:37.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:37.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:37.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:37.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:37.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:37.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:37.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:37.138][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.141][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.146][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.160][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:37.163][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:37.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.167][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.170][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:37.173][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:37.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.178][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.181][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:37.183][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:37.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.187][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.190][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:37.192][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:37.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.197][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.200][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:37.202][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:37.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.206][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.209][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:37.211][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.216][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.219][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:37.223][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:37.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.227][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.230][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:37.232][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:37.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.237][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.241][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:37.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:37.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.251][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:37.254][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:37.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.258][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.261][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:37.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:37.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.271][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:37.273][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:37.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.278][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:37.396][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-01-14 00:13:37.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:37.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:37.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:37.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:37.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:37.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:37.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:37.474][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[2025-01-14 00:13:37.476][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-01-14 00:13:37.479][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:37.482][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-01-14 00:13:37.486][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:37.489][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-01-14 00:13:37.492][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:37.494][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:37.497][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:37.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:37.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:37.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:37.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:37.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:37.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:37.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:37.528][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.531][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.535][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.547][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:37.550][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:37.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.554][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.557][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:37.559][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:37.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.563][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.566][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:37.569][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:37.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.573][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.576][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:37.578][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:37.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.583][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.585][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:37.595][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:37.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.599][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.602][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:37.604][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.608][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.611][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:37.613][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:37.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.618][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.620][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:37.623][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:37.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.628][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:37.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:37.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.642][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:37.644][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:37.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.648][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.650][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:37.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:37.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.660][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:37.662][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:37.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.667][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:37.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:37.759][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-01-14 00:13:37.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.799][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:37.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:37.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:37.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:37.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:37.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:37.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:37.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:37.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:37.833][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-01-14 00:13:37.835][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:37.839][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-01-14 00:13:37.842][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:37.846][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-01-14 00:13:37.858][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:37.861][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:37.864][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:37.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:37.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:37.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:37.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:37.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:37.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:37.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:37.893][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.895][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.898][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:37.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:37.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.910][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:37.913][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:37.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.916][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.919][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:37.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:37.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.929][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:37.931][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:37.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.936][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.939][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:37.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:37.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.949][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:37.951][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:37.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.956][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:37.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:37.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.968][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:37.971][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:37.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.975][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:37.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:37.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.987][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:37.990][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:37.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:37.994][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:37.997][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:38.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:38.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.006][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:38.008][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.013][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.015][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:38.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.025][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.027][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.032][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.042][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:38.044][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:38.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.048][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:38.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:38.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.061][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:38.063][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:38.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.068][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.070][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:38.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:38.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.080][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:38.082][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:38.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.087][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:38.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:38.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:38.222][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-01-14 00:13:38.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:38.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:38.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:38.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:38.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:38.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:38.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:38.278][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[2025-01-14 00:13:38.280][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-01-14 00:13:38.282][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:38.285][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-01-14 00:13:38.289][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:38.292][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-01-14 00:13:38.295][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:38.298][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:38.301][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:38.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:38.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:38.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:38.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:38.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:38.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:38.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:38.334][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.337][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.342][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.355][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:38.358][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:38.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.362][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.365][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:38.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:38.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.374][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:38.377][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:38.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.382][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.385][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:38.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:38.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.395][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:38.398][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:38.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.402][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:38.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:38.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.424][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:38.427][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:38.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.430][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:38.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:38.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.442][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:38.445][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:38.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.450][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.452][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:38.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:38.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.462][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:38.464][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.469][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.472][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:38.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.481][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.483][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.488][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.500][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:38.503][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:38.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.507][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.510][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:38.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:38.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.520][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:38.523][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:38.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.528][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.530][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:38.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:38.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.540][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:38.542][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:38.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.547][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.550][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:38.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:38.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:38.661][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-01-14 00:13:38.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:38.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:38.704][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:38.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:38.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:38.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:38.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:38.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:38.727][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-01-14 00:13:38.730][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:38.733][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-01-14 00:13:38.736][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:38.739][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-01-14 00:13:38.742][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:38.744][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:38.747][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:38.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:38.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:38.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:38.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:38.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:38.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:38.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:38.777][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.780][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.784][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:38.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:38.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.796][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:38.799][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:38.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.803][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.806][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:38.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:38.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.815][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:38.818][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:38.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.822][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.825][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:38.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:38.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.834][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:38.837][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:38.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.842][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:38.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:38.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.854][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:38.857][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:38.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.861][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.864][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:38.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:38.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.874][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:38.877][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:38.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.881][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.884][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:38.886][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.891][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.893][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:38.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:38.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.903][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.905][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.909][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:38.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.921][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:38.924][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:38.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.928][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.931][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:38.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:38.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.940][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:38.942][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:38.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.946][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.948][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:38.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:38.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.955][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:38.963][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:38.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.968][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.970][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:38.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:38.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:38.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:38.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:38.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:39.072][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-01-14 00:13:39.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:39.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:39.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:39.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:39.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:39.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:39.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:39.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:39.125][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-01-14 00:13:39.127][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:39.131][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-01-14 00:13:39.134][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:39.138][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-01-14 00:13:39.141][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:39.144][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:39.147][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:39.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:39.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:39.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:39.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:39.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:39.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:39.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:39.178][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.181][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.185][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.198][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:39.201][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:39.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.206][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.208][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:39.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:39.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.217][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:39.220][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:39.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.234][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.238][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:39.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:39.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.249][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:39.252][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:39.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.257][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:39.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:39.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.272][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:39.275][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:39.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.280][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:39.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:39.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.292][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:39.295][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:39.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.300][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.302][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:39.305][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.310][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.312][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:39.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.321][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:39.324][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:39.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.328][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:39.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:39.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.340][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:39.342][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:39.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.346][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.350][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:39.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:39.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.360][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:39.362][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:39.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.367][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.370][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:39.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:39.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.378][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:39.380][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:39.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.384][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.387][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:39.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:39.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:39.491][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-01-14 00:13:39.494][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:39.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:39.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:39.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:39.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:39.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:39.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:39.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:39.564][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-01-14 00:13:39.568][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:39.601][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-01-14 00:13:39.604][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:39.683][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-01-14 00:13:39.686][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:39.689][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:39.692][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:39.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:39.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:39.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:39.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:39.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:39.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:39.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:39.723][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.726][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.730][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.743][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:39.745][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:39.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.750][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.753][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:39.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:39.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.763][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:39.765][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:39.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.770][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.773][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:39.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:39.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.783][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:39.786][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:39.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.790][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:39.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:39.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.804][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:39.806][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:39.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.811][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:39.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:39.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.825][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:39.828][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:39.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.833][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.836][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:39.838][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.843][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.847][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:39.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:39.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.857][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:39.860][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:39.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.865][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:39.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:39.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.878][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:39.881][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:39.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.885][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:39.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:39.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.898][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:39.909][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:39.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.915][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.918][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:39.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:39.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.928][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:39.931][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:39.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.936][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.939][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:39.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:39.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:39.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:39.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:39.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:39.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:39.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:40.049][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-01-14 00:13:40.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:40.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:40.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:40.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:40.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:40.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:40.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:40.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:40.108][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-01-14 00:13:40.111][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:40.114][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-01-14 00:13:40.118][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:40.121][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-01-14 00:13:40.124][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:40.127][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:40.129][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:40.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:40.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:40.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:40.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:40.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:40.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:40.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:40.162][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.165][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.169][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.182][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:40.185][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:40.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.198][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.201][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:40.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:40.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.211][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:40.214][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:40.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.219][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.222][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:40.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:40.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.232][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:40.234][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:40.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.239][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:40.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:40.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.253][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:40.256][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:40.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.260][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:40.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:40.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.273][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:40.275][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:40.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.280][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.283][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:40.285][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.290][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.293][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:40.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.303][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:40.306][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:40.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.310][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:40.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:40.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.323][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:40.325][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:40.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.330][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:40.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:40.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.343][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:40.346][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:40.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.353][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.356][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:40.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:40.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.365][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:40.367][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:40.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.372][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.375][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:40.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:40.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:40.495][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-01-14 00:13:40.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:40.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:40.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:40.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:40.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:40.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:40.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:40.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:40.543][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-01-14 00:13:40.546][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:40.549][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-01-14 00:13:40.553][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:40.590][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-01-14 00:13:40.593][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:40.596][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:40.599][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:40.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:40.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:40.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:40.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:40.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:40.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:40.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:40.630][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.632][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.636][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.648][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:40.650][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:40.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.655][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.658][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:40.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:40.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.667][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:40.670][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:40.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.674][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.677][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:40.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:40.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.686][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:40.689][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:40.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.694][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:40.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:40.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.707][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:40.710][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:40.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.714][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:40.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:40.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.726][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:40.729][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:40.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.733][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.736][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:40.739][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.743][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.746][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:40.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.756][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:40.758][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:40.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.763][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:40.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:40.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.784][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:40.786][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:40.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.791][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.794][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:40.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:40.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.803][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:40.805][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:40.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.809][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.812][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:40.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:40.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.822][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:40.824][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:40.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.828][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.831][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:40.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:40.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:40.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:40.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:40.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:40.939][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-01-14 00:13:40.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:40.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:40.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:40.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:40.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:40.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:40.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:40.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:40.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:40.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:40.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:41.001][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-01-14 00:13:41.003][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:41.007][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-01-14 00:13:41.010][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:41.014][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-01-14 00:13:41.017][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:41.020][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:41.023][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:41.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:41.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:41.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:41.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:41.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:41.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:41.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:41.053][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.065][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.070][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.084][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:41.087][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:41.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.093][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.096][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:41.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:41.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.107][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:41.110][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:41.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.115][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.119][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:41.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:41.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.130][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:41.133][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:41.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.137][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.141][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:41.144][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:41.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.150][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.153][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:41.156][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:41.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.161][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.164][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:41.167][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.172][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.175][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:41.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.186][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:41.188][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:41.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.193][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:41.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:41.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.207][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:41.210][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:41.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.215][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.219][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:41.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:41.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.229][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:41.231][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:41.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.236][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.239][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:41.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:41.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.249][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:41.252][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:41.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.256][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:41.371][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-01-14 00:13:41.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:41.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:41.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:41.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:41.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:41.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:41.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:41.424][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[2025-01-14 00:13:41.427][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-01-14 00:13:41.429][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:41.433][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-01-14 00:13:41.435][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:41.439][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-01-14 00:13:41.442][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:41.445][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:41.447][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:41.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:41.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:41.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:41.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:41.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:41.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:41.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:41.478][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.481][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.485][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.499][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:41.502][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:41.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.506][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.509][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:41.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:41.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.519][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:41.521][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:41.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.526][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.528][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:41.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:41.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.537][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:41.539][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:41.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.543][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.546][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:41.549][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:41.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.553][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.556][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:41.558][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:41.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.563][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.566][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:41.568][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.573][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.575][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:41.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.585][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:41.588][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:41.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.592][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:41.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:41.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.607][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:41.611][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:41.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.616][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:41.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:41.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.637][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:41.640][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:41.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.645][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.648][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:41.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:41.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.658][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:41.660][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:41.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.665][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:41.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:41.765][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-01-14 00:13:41.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:41.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:41.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:41.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:41.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:41.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:41.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:41.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:41.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:41.821][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-01-14 00:13:41.824][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:41.828][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-01-14 00:13:41.834][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:41.838][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-01-14 00:13:41.841][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:41.844][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:41.846][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:41.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:41.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:41.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:41.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:41.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:41.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:41.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:41.878][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.911][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.917][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:41.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:41.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.932][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:41.935][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:41.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.940][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.944][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:41.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:41.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.977][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:41.980][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:41.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.984][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:41.990][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:41.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:41.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:41.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.000][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:42.005][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:42.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.010][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:42.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:42.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.023][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:42.025][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:42.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.030][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:42.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:42.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.088][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:42.091][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:42.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.098][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.102][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:42.104][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.110][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.114][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:42.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.126][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:42.129][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:42.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.135][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:42.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:42.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.149][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:42.152][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:42.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.156][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:42.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:42.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.170][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:42.173][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:42.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.181][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.184][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:42.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:42.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.194][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:42.196][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:42.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.202][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.204][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:42.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:42.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:42.362][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-01-14 00:13:42.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:42.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:42.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:42.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:42.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:42.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:42.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:42.484][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[2025-01-14 00:13:42.514][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-01-14 00:13:42.517][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:42.521][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-01-14 00:13:42.524][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:42.529][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-01-14 00:13:42.532][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:42.535][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:42.538][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:42.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:42.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:42.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:42.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:42.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:42.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:42.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:42.586][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.588][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.593][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.607][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:42.610][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:42.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.615][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.618][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:42.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:42.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.628][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:42.631][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:42.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.635][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.638][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:42.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:42.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.648][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:42.650][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:42.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.655][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.658][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:42.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:42.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.669][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:42.671][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:42.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.676][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.679][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:42.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:42.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.691][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:42.693][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:42.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.698][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.702][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:42.704][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.709][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.712][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:42.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.722][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:42.725][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:42.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.730][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:42.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:42.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.753][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:42.756][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:42.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.761][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:42.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:42.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.776][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:42.779][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:42.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.784][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.787][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:42.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:42.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.798][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:42.800][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:42.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.806][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.809][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:42.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:42.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:42.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:42.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:42.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:42.959][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-01-14 00:13:42.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:42.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:42.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:42.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:43.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:43.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:43.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:43.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:43.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:43.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:43.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:43.036][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-01-14 00:13:43.039][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:43.042][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-01-14 00:13:43.046][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:43.049][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-01-14 00:13:43.052][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:43.054][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:43.057][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:43.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:43.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:43.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:43.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:43.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:43.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:43.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:43.132][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:43.134][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:43.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.139][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:43.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:43.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.151][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:43.153][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:43.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.157][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.160][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:43.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:43.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.169][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:43.172][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:43.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.176][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.179][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:43.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:43.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.188][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:43.191][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:43.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.196][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:43.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:43.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.218][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:43.221][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:43.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.225][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:43.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:43.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.238][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:43.241][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:43.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.245][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.248][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:43.251][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.256][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.259][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:43.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.270][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:43.274][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:43.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.279][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:43.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:43.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.297][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:43.300][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:43.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.308][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.312][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:43.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:43.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.325][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:43.328][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:43.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.333][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.336][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:43.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:43.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.346][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:43.352][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:43.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.357][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.362][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:43.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:43.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:43.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:43.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:43.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:43.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:43.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:43.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:43.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:43.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:43.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:43.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:43.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:43.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:43.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:43.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:43.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:43.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:43.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:43.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:43.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:43.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:43.567][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-01-14 00:13:43.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:43.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:43.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:43.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:43.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:43.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:43.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:43.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:43.643][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-01-14 00:13:43.646][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:43.652][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-01-14 00:13:43.659][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:43.668][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-01-14 00:13:43.679][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:43.682][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:43.686][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:43.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:43.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:43.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:43.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:43.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:43.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:43.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:43.721][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:43.723][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:43.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.729][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:43.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:43.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.744][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:43.746][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:43.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.753][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.755][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:43.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:43.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.766][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:43.768][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:43.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.774][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.778][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:43.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:43.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.789][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:43.792][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:43.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.799][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.801][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:43.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:43.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.814][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:43.816][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:43.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.822][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:43.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:43.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.836][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:43.840][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:43.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.847][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.852][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:43.855][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.904][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.907][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:43.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:43.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.917][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:43.919][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:43.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.924][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:43.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:43.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.937][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:43.940][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:43.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.945][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.949][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:43.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:43.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.960][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:43.963][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:43.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.967][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.970][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:43.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:43.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.980][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:43.982][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:43.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:43.987][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:43.991][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:43.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:43.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:44.100][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-01-14 00:13:44.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:44.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:44.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:44.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:44.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:44.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:44.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:44.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:44.157][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-01-14 00:13:44.159][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:44.163][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-01-14 00:13:44.166][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:44.170][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-01-14 00:13:44.182][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:44.185][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:44.188][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:44.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:44.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:44.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:44.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:44.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:44.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:44.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:44.221][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.223][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.228][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.239][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:44.242][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:44.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.247][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.250][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:44.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:44.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.262][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:44.306][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:44.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.311][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.313][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:44.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:44.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.322][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:44.326][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:44.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.333][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:44.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:44.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.345][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:44.348][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:44.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.353][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:44.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:44.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.368][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:44.371][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:44.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.377][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.381][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:44.383][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.389][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.392][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:44.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.407][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:44.409][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:44.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.414][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:44.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:44.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.429][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:44.432][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:44.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.437][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:44.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:44.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.451][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:44.454][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:44.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.459][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.462][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:44.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:44.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.473][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:44.475][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:44.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.480][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.484][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:44.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:44.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:44.635][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-01-14 00:13:44.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:44.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:44.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:44.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:44.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:44.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:44.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:44.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:44.696][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-01-14 00:13:44.699][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:44.702][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-01-14 00:13:44.705][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:44.713][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-01-14 00:13:44.716][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:44.718][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:44.720][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:44.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:44.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:44.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:44.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:44.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:44.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:44.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:44.750][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.752][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.756][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.769][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:44.772][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:44.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.776][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.779][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:44.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:44.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.789][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:44.792][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:44.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.796][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.799][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:44.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:44.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.809][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:44.811][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:44.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.816][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:44.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:44.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.841][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:44.843][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:44.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.849][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:44.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:44.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.862][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:44.865][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:44.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.869][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.873][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:44.875][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.880][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.883][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:44.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:44.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.893][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:44.895][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:44.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.899][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:44.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:44.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.911][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:44.913][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:44.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.917][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:44.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:44.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.930][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:44.932][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:44.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.936][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.939][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:44.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:44.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.949][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:44.952][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:44.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.956][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.959][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:44.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:44.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:44.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:44.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:44.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:44.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:44.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:45.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:45.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:45.156][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-01-14 00:13:45.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:45.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:45.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:45.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:45.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:45.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:45.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:45.225][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[2025-01-14 00:13:45.228][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-01-14 00:13:45.235][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:45.239][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-01-14 00:13:45.245][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:45.248][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-01-14 00:13:45.251][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:45.254][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:45.257][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:45.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:45.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:45.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:45.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:45.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:45.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:45.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:45.306][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.308][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.313][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.332][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:45.335][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:45.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.340][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.343][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:45.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:45.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.353][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:45.355][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:45.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.361][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.366][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:45.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:45.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.378][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:45.380][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:45.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.386][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.389][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:45.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:45.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.398][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:45.401][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:45.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.406][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.409][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:45.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:45.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.420][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:45.423][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:45.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.432][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.435][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:45.437][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.443][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.447][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:45.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.458][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:45.460][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:45.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.466][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:45.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:45.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.557][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:45.559][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:45.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.564][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:45.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:45.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.576][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:45.579][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:45.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.583][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.586][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:45.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:45.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.595][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:45.598][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:45.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.611][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.614][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:45.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:45.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:45.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:45.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:45.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:45.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:45.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:45.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:45.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:45.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:45.731][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-01-14 00:13:45.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:45.823][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[2025-01-14 00:13:45.831][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:45.835][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-14 00:13:45.838][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:45.842][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-14 00:13:45.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:45.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:45.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:45.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:45.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:45.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:45.877][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[2025-01-14 00:13:45.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:45.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:45.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:45.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:45.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:45.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:45.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:45.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:45.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:45.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:45.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:45.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.350][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[2025-01-14 00:13:46.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.694][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[2025-01-14 00:13:46.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:46.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:46.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:46.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:46.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:46.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:46.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:46.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:46.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:46.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:46.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:46.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:47.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:47.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:47.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:47.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:47.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:47.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:47.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:47.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:47.060][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[2025-01-14 00:13:47.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:47.274][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[2025-01-14 00:13:47.283][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:47.286][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-01-14 00:13:47.289][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:47.293][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-01-14 00:13:47.299][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[2025-01-14 00:13:47.308][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:47.311][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-01-14 00:13:47.314][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:47.318][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-01-14 00:13:47.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:47.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:47.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:47.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:47.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:47.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:47.346][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[2025-01-14 00:13:47.348][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-01-14 00:13:47.351][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:47.354][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-01-14 00:13:47.357][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:47.361][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-01-14 00:13:47.364][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:47.366][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:47.369][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:47.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:47.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:47.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:47.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:47.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:47.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:47.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:47.412][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:47.418][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:47.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.422][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:47.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:47.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.435][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:47.439][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:47.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.444][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.446][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:47.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:47.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.456][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:47.459][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:47.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.463][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.466][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:47.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:47.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.476][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:47.481][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:47.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.486][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.488][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:47.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:47.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.498][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:47.501][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:47.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.505][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:47.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:47.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.518][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:47.521][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:47.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.526][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.529][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:47.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:47.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.540][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:47.542][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.547][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.550][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:47.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:47.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.563][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.566][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.571][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.584][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:47.587][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:47.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.592][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:47.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:47.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.606][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:47.608][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:47.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.613][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.616][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:47.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:47.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.628][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:47.631][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:47.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.636][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.639][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:47.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:47.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:47.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:47.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:47.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:47.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:47.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:47.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:47.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:47.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:47.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:47.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:47.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:47.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:47.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:47.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:47.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:47.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:47.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:47.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:47.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:47.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:47.769][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-01-14 00:13:47.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:47.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:47.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:47.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:47.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:47.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:47.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:47.832][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[2025-01-14 00:13:47.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:47.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:47.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:47.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:47.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:47.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:47.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:47.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:47.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:47.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:47.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:47.896][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-01-14 00:13:47.898][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:47.902][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-01-14 00:13:47.973][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:47.977][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-01-14 00:13:47.981][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:47.984][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:47.987][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:47.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:47.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:47.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:48.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:48.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:48.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:48.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:48.022][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:48.024][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:48.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.029][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:48.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:48.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.044][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:48.047][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:48.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.052][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.056][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:48.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:48.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.078][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:48.081][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:48.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.087][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.089][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:48.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:48.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.099][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:48.101][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:48.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.105][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:48.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:48.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.119][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:48.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:48.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.126][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:48.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:48.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.139][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:48.142][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:48.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.147][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.150][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:48.153][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:48.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.157][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.160][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:48.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:48.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.171][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.174][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.178][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.192][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:48.195][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:48.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.199][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.203][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:48.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:48.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.212][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:48.215][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:48.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.220][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.223][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:48.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:48.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.232][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:48.235][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:48.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.240][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.243][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:48.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:48.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:48.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:48.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:48.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:48.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:48.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:48.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:48.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:48.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:48.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:48.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:48.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:48.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:48.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:48.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:48.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:48.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:48.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:48.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:48.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:48.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:48.366][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-01-14 00:13:48.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:48.442][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[2025-01-14 00:13:48.450][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:48.454][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-14 00:13:48.457][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:48.460][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-14 00:13:48.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:48.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:48.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:48.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:48.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:48.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:48.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:48.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:48.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:48.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:48.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:48.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:48.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:48.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:48.548][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.TRACE[2025-01-14 00:13:48.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:48.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:48.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:48.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:48.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:48.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:48.620][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:48.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:48.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:48.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:48.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:48.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:48.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:48.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:48.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:48.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:48.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:48.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:48.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:48.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:48.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:48.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:48.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:48.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:48.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:48.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:48.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:48.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:48.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:48.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:48.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:48.841][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[2025-01-14 00:13:48.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:48.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:48.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:48.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:48.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:48.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:48.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:48.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:48.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:48.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:48.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:48.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:48.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:48.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:48.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:48.967][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.TRACE[2025-01-14 00:13:48.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:48.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:48.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:48.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:48.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.338][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[2025-01-14 00:13:49.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.399][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.TRACE[2025-01-14 00:13:49.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.644][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[2025-01-14 00:13:49.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.783][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[2025-01-14 00:13:49.791][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:49.794][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-01-14 00:13:49.797][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:49.800][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-01-14 00:13:49.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:49.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:49.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:49.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:49.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:49.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:49.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:49.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:49.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:49.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:49.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:49.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.439][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[2025-01-14 00:13:50.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.534][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.664][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.TRACE[2025-01-14 00:13:50.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.729][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[2025-01-14 00:13:50.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:50.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:50.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:50.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:50.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:50.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:50.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:50.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:50.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:50.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:50.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:50.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:51.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:51.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:51.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:51.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:51.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:51.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:51.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:51.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:51.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:51.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:51.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:51.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:51.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:51.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.102][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-14 00:13:51.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-14 00:13:51.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-14 00:13:51.130][biodb::testThat]
biodb.INFO [2025-01-14 00:13:51.132][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-01-14 00:13:51.134][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:51.137][biodb::testThat]
biodb.TRACE[2025-01-14 00:13:51.183][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 00:13:51.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 00:13:51.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:51.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:51.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:51.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:51.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:51.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:51.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:51.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:51.271][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[2025-01-14 00:13:51.279][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:51.283][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-14 00:13:51.287][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:51.290][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-14 00:13:51.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:51.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:51.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:51.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:51.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:51.316][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:51.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:51.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:51.543][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[2025-01-14 00:13:51.553][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:51.558][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-14 00:13:51.564][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:51.567][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-14 00:13:51.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:51.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:51.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:51.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:51.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:51.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:51.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:51.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:51.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:51.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:51.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:51.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:51.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:51.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:51.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:51.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:51.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:51.686][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-14 00:13:51.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:51.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:51.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:51.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:51.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:51.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:51.715][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[2025-01-14 00:13:51.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.738][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:51.740][private$selectFields]
biodb.TRACE[2025-01-14 00:13:51.742][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:51.744][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:51.747][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:51.751][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.753][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.758][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.761][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.764][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.768][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.771][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:51.774][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:51.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.779][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.784][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.786][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:51.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.847][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-14 00:13:51.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:51.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:51.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:51.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:51.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:51.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:51.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:51.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.905][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:51.910][private$selectFields]
biodb.TRACE[2025-01-14 00:13:51.912][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:51.915][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:51.918][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:51.921][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.925][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.931][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.937][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.942][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.945][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:51.947][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:51.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.954][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.959][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.963][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:51.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:51.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:51.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:51.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.004][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-14 00:13:52.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:52.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:52.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:52.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:52.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:52.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:52.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:52.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.062][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:52.065][private$selectFields]
biodb.TRACE[2025-01-14 00:13:52.067][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:52.070][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:52.073][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:52.076][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.085][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.088][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.091][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.097][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.100][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:52.103][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:52.105][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.114][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.117][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:52.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.157][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-14 00:13:52.160][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-14 00:13:52.163][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-14 00:13:52.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:52.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:52.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:52.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:52.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:52.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:52.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:52.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:52.437][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[2025-01-14 00:13:52.458][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:52.461][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-01-14 00:13:52.464][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:52.468][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-01-14 00:13:52.474][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[2025-01-14 00:13:52.482][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:52.485][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-01-14 00:13:52.488][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:52.492][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-01-14 00:13:52.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:52.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:52.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:52.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:52.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:52.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:52.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:52.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:52.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:52.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:52.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:52.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:52.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:52.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:52.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:52.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:52.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:52.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:52.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:52.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:52.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:52.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:52.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:52.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:52.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:52.729][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-14 00:13:52.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:52.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:52.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:52.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:52.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:52.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:52.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:52.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.846][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:52.848][private$selectFields]
biodb.TRACE[2025-01-14 00:13:52.851][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:52.854][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:52.856][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:52.859][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.867][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.869][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.872][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.877][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.879][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:52.883][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:52.885][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.888][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.893][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.895][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:52.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:52.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:52.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:52.939][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-14 00:13:52.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:52.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:52.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:52.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:52.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:52.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:52.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:53.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.096][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.098][private$selectFields]
biodb.TRACE[2025-01-14 00:13:53.100][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:53.103][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:53.105][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.108][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.111][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.116][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.120][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.123][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.127][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.130][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.159][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.161][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.164][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.169][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.171][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:53.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.204][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-14 00:13:53.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:53.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:53.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:53.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:53.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:53.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:53.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:53.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.254][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.256][private$selectFields]
biodb.TRACE[2025-01-14 00:13:53.259][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:53.261][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:53.263][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.266][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.274][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.277][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.279][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.284][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.286][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.289][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.291][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.293][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.299][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.310][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:53.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.345][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-14 00:13:53.347][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-14 00:13:53.350][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-14 00:13:53.373][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-14 00:13:53.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-14 00:13:53.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-14 00:13:53.392][biodb::testThat]
biodb.INFO [2025-01-14 00:13:53.394][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-01-14 00:13:53.397][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:53.399][biodb::testThat]
biodb.TRACE[2025-01-14 00:13:53.405][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 00:13:53.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 00:13:53.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:53.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:53.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:53.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:53.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:53.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:53.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:53.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:53.493][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[2025-01-14 00:13:53.501][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:53.504][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-14 00:13:53.507][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:53.510][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-14 00:13:53.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:53.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:53.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:53.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:53.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:53.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:53.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:53.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:53.570][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[2025-01-14 00:13:53.578][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:53.581][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-14 00:13:53.585][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:53.588][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-14 00:13:53.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:53.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:53.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:53.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:53.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:53.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:53.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:53.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:53.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:53.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:53.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:53.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:53.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:53.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:53.672][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[2025-01-14 00:13:53.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:53.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:53.712][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-14 00:13:53.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:53.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:53.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:53.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:53.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:53.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:53.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:53.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.768][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.770][private$selectFields]
biodb.TRACE[2025-01-14 00:13:53.773][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:53.777][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:53.780][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.782][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.785][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.793][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.797][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.803][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.808][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.810][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.814][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.817][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.820][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.825][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.828][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:53.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.880][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-14 00:13:53.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:53.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:53.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:53.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:53.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:53.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:53.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:53.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.960][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.963][private$selectFields]
biodb.TRACE[2025-01-14 00:13:53.965][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:53.968][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:53.970][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:53.973][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:53.990][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:53.993][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:53.998][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.004][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.008][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:54.012][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:54.015][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.019][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.026][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.029][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:54.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.075][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-14 00:13:54.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:54.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:54.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:54.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:54.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:54.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:54.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:54.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.143][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:54.145][private$selectFields]
biodb.TRACE[2025-01-14 00:13:54.148][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:54.151][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:54.154][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:54.157][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.166][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.169][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.171][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.178][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.181][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:54.183][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:54.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.194][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.198][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:54.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.239][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-14 00:13:54.242][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-14 00:13:54.248][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-14 00:13:54.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:54.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:54.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:54.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:54.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:54.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:54.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:54.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:54.389][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[2025-01-14 00:13:54.398][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:54.402][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-01-14 00:13:54.405][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:54.412][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-01-14 00:13:54.421][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[2025-01-14 00:13:54.432][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:54.440][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-01-14 00:13:54.443][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:54.448][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-01-14 00:13:54.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:54.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:54.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:54.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:54.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:54.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:54.490][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.TRACE[2025-01-14 00:13:54.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:54.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:54.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:54.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:54.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:54.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:54.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:54.585][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.TRACE[2025-01-14 00:13:54.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:54.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:54.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:54.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:54.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:54.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:54.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:54.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:54.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:54.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:54.781][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-14 00:13:54.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:54.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:54.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:54.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:54.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:54.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:54.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:54.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.839][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:54.841][private$selectFields]
biodb.TRACE[2025-01-14 00:13:54.847][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:54.850][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:54.853][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:54.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.859][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.864][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.867][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.870][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.877][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.880][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:54.884][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:54.888][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.891][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.899][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.902][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:54.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.947][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-14 00:13:54.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:54.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:54.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:54.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:54.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:54.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:54.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:54.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:54.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:54.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:54.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.007][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.010][private$selectFields]
biodb.TRACE[2025-01-14 00:13:55.013][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:55.015][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:55.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.021][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.024][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.029][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.031][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.034][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.053][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.055][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.058][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.063][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.067][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.069][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:55.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.102][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-14 00:13:55.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:55.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:55.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:55.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:55.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:55.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:55.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:55.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.161][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.163][private$selectFields]
biodb.TRACE[2025-01-14 00:13:55.165][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:55.168][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:55.170][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.172][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.174][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.180][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.182][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.185][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.189][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.191][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.194][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.196][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.199][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.203][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.206][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:55.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.237][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-14 00:13:55.240][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-14 00:13:55.243][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-14 00:13:55.266][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-14 00:13:55.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-14 00:13:55.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-14 00:13:55.282][biodb::testThat]
biodb.INFO [2025-01-14 00:13:55.284][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-01-14 00:13:55.287][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:55.289][biodb::testThat]
biodb.TRACE[2025-01-14 00:13:55.299][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-14 00:13:55.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-14 00:13:55.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:55.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:55.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:55.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:55.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:55.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:55.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:55.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:55.405][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[2025-01-14 00:13:55.413][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:55.416][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-01-14 00:13:55.419][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:55.423][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-01-14 00:13:55.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:55.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:55.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:55.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:55.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:55.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:55.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:55.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:55.496][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[2025-01-14 00:13:55.514][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:55.517][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-01-14 00:13:55.520][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:55.525][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-01-14 00:13:55.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:55.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:55.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:55.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:55.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:55.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:55.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:55.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:55.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:55.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:55.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:55.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:55.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:55.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:55.606][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.TRACE[2025-01-14 00:13:55.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:55.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:55.638][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-14 00:13:55.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:55.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:55.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:55.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:55.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:55.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:55.664][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.TRACE[2025-01-14 00:13:55.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.686][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.688][private$selectFields]
biodb.TRACE[2025-01-14 00:13:55.692][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:55.694][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:55.696][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.699][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.702][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.706][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.709][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.714][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.718][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.723][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.733][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.736][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:55.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.777][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-01-14 00:13:55.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:55.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:55.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:55.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:55.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:55.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:55.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:55.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.852][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.854][private$selectFields]
biodb.TRACE[2025-01-14 00:13:55.856][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:55.859][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:55.868][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.871][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.874][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.880][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.882][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.891][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.896][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:55.898][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.908][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.910][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:55.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.950][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-14 00:13:55.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:55.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:55.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:55.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:55.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:55.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:55.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:55.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:55.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:55.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:55.999][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.003][private$selectFields]
biodb.TRACE[2025-01-14 00:13:56.006][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:56.009][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:56.011][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.013][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.016][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.021][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.024][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.031][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.034][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.037][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.042][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.048][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.050][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:56.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.087][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-01-14 00:13:56.092][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-14 00:13:56.094][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-14 00:13:56.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:56.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:56.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:56.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:56.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:56.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:56.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:56.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:56.226][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[2025-01-14 00:13:56.235][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:56.239][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-01-14 00:13:56.242][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:56.245][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-01-14 00:13:56.252][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[2025-01-14 00:13:56.260][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:13:56.263][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-01-14 00:13:56.266][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:13:56.269][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-01-14 00:13:56.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:56.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:56.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:56.292][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:56.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:56.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:56.299][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[2025-01-14 00:13:56.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:56.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:56.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:56.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:56.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:56.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:56.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:56.354][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.TRACE[2025-01-14 00:13:56.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:56.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:56.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:56.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:56.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:56.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:56.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:56.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:56.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:56.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:56.449][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-01-14 00:13:56.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:56.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:56.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:56.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:56.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:56.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:56.475][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[2025-01-14 00:13:56.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.498][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.500][private$selectFields]
biodb.TRACE[2025-01-14 00:13:56.503][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:56.505][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:56.507][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.509][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.511][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.515][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.517][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.520][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.527][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.530][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.532][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.541][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.544][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:56.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.575][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-01-14 00:13:56.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:56.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:56.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:56.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:56.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:56.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:56.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:56.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.623][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.626][private$selectFields]
biodb.TRACE[2025-01-14 00:13:56.628][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:56.631][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:56.633][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.635][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.638][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.643][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.645][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.648][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.653][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.655][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.658][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.660][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.663][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.668][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.671][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:56.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.704][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-01-14 00:13:56.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:56.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:56.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:56.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:56.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:56.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:56.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:56.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.759][private$selectFields]
biodb.TRACE[2025-01-14 00:13:56.761][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-01-14 00:13:56.763][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-01-14 00:13:56.765][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.767][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.774][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.777][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.784][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.787][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.792][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-01-14 00:13:56.794][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.797][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.802][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.805][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-01-14 00:13:56.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:56.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:56.839][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-01-14 00:13:56.841][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-01-14 00:13:56.844][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-01-14 00:13:56.893][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-01-14 00:13:56.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-01-14 00:13:56.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:56.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-14 00:13:56.909][biodb::testThat]
biodb.INFO [2025-01-14 00:13:56.911][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-01-14 00:13:56.913][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:56.915][biodb::testThat]
biodb.DEBUG[2025-01-14 00:13:56.931][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-14 00:13:56.934][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:13:56.949][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-14 00:13:56.952][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-14 00:13:56.954][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-14 00:13:56.957][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:56.960][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-14 00:13:56.962][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-14 00:13:56.964][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-14 00:13:56.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:56.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:56.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:56.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:56.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:56.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:56.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:56.997][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2025-01-14 00:13:57.004][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-14 00:13:57.006][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-14 00:13:57.009][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2025-01-14 00:13:57.450][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2025-01-14 00:13:57.870][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-14 00:13:57.874][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2025-01-14 00:13:57.916][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2025-01-14 00:13:57.922][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2025-01-14 00:13:57.926][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-14 00:13:57.930][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:13:57.934][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:57.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:57.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:57.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:57.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:57.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:57.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:57.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:57.967][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:57.970][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:57.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:57.975][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:57.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:57.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:57.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:57.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:57.987][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:57.990][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:57.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:57.995][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:57.998][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:58.000][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:58.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.005][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.009][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:58.011][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:58.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.016][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.019][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:58.022][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:58.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.027][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.030][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:58.033][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:58.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.038][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.041][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:58.044][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:58.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.049][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.052][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:58.055][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:58.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.060][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.063][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:58.066][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:58.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.071][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.074][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:58.078][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:58.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.082][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.085][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:58.087][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:58.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.092][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:58.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:58.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:58.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:58.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:58.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:58.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:58.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:58.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:58.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:58.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:58.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:58.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:58.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:58.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:58.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:58.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:58.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:58.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:58.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:58.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:58.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:58.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:58.210][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-01-14 00:13:58.212][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-14 00:13:58.231][biodb::testThat]
biodb.INFO [2025-01-14 00:13:58.234][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-01-14 00:13:58.236][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:13:58.238][biodb::testThat]
biodb.DEBUG[2025-01-14 00:13:58.262][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-01-14 00:13:58.265][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-01-14 00:13:58.268][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-01-14 00:13:58.271][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-01-14 00:13:58.275][cch$loadFileContent] file.exist = [3]: "FALSE, TRUE, TRUE".
biodb.TRACE[2025-01-14 00:13:58.279][loadFileContents] Loaded 2 files from cache: [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-01-14 00:13:58.282][conn$getEntryContent] 2 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:13:58.285][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-14 00:13:58.288][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-14 00:13:58.291][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-14 00:13:58.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:58.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:58.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:58.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:58.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:58.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:58.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:13:58.355][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2025-01-14 00:13:58.397][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-14 00:13:58.399][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-14 00:13:58.444][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2025-01-14 00:13:58.864][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2025-01-14 00:13:59.283][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-14 00:13:59.287][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2025-01-14 00:13:59.321][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.TRACE[2025-01-14 00:13:59.327][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml"
biodb.DEBUG[2025-01-14 00:13:59.331][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-14 00:13:59.335][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-01-14 00:13:59.337][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-01-14 00:13:59.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:59.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:59.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:59.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:59.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:59.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:59.364][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[2025-01-14 00:13:59.369][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.372][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.377][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.389][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:59.391][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:59.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.396][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.398][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:59.401][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:59.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.405][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.408][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:59.411][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:59.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.415][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.418][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:59.421][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:59.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.428][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.431][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:59.434][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:59.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.438][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.441][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:59.444][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:59.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.449][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.451][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:59.454][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:59.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.458][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.461][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:59.464][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:59.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.468][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.471][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:59.474][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:59.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.478][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.481][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:59.483][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:59.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.487][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:59.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:59.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:59.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:59.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:59.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:59.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:59.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:13:59.580][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.582][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.587][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.599][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:59.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:59.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.606][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.609][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:59.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:59.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.619][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:59.622][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:59.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.626][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.629][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:59.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:59.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.639][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:59.641][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:59.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.646][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:59.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:59.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.659][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:59.662][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:59.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.666][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:59.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:59.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.678][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:59.681][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:59.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.686][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.688][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:59.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:13:59.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.698][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:59.700][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:59.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.704][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.707][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:13:59.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:13:59.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.716][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:59.719][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:59.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.723][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:59.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:13:59.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.735][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:59.738][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:59.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.743][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:13:59.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:13:59.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.756][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:59.759][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:59.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.763][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.766][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:13:59.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:13:59.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.775][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:59.778][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:59.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.782][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.785][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:13:59.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:13:59.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:13:59.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:13:59.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:13:59.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:13:59.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:13:59.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:13:59.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:13:59.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:13:59.895][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[2025-01-14 00:13:59.900][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.903][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.909][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:13:59.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:13:59.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.922][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:59.924][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:59.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.929][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.931][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:13:59.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:13:59.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.942][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:59.944][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:59.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.949][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.952][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:13:59.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:13:59.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.961][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:59.964][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:59.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.968][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.971][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:13:59.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:13:59.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.980][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:59.983][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:59.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.987][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:13:59.990][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:13:59.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:13:59.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:13:59.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.001][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:14:00.004][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:14:00.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.009][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.012][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:14:00.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:14:00.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.022][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:14:00.025][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:14:00.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.029][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.032][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:14:00.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:14:00.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.044][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:14:00.048][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:14:00.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.052][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:14:00.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:14:00.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.065][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:14:00.068][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:14:00.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.073][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:14:00.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:14:00.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.089][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:14:00.091][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:14:00.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.096][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.099][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:14:00.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:14:00.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.109][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:14:00.111][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:14:00.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.116][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.119][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:14:00.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:14:00.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:14:00.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:14:00.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:14:00.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:14:00.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:14:00.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:14:00.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:00.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:00.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:00.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:00.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:14:00.287][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-01-14 00:14:00.290][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-14 00:14:00.292][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-01-14 00:14:00.327][biodb::testThat]
biodb.INFO [2025-01-14 00:14:00.330][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-01-14 00:14:00.332][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:14:00.335][biodb::testThat]
biodb.INFO [2025-01-14 00:14:00.398][biodb::testThat]
biodb.INFO [2025-01-14 00:14:00.400][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-01-14 00:14:00.402][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:14:00.404][biodb::testThat]
biodb.INFO [2025-01-14 00:14:00.423][biodb::testThat]
biodb.INFO [2025-01-14 00:14:00.425][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-01-14 00:14:00.428][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:14:00.430][biodb::testThat]
biodb.DEBUG[2025-01-14 00:14:00.435][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[2025-01-14 00:14:00.446][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-14 00:14:00.449][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-14 00:14:00.453][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2025-01-14 00:14:00.986][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2025-01-14 00:14:01.523][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-14 00:14:01.527][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2025-01-14 00:14:01.537][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2025-01-14 00:14:01.566][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:14:01.568][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:14:01.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:01.573][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:01.575][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:14:01.577][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:14:01.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:01.581][ef$get] fields variable is a list.
biodb.INFO [2025-01-14 00:14:01.584][biodb::testThat]
biodb.INFO [2025-01-14 00:14:01.587][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-01-14 00:14:01.589][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:14:01.591][biodb::testThat]
biodb.ERROR[2025-01-14 00:14:01.624][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-01-14 00:14:01.666][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-01-14 00:14:01.699][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-14 00:14:01.701][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-14 00:14:01.704][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-14 00:14:01.706][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-14 00:14:01.708][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:01.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:01.711][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:01.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:01.715][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-14 00:14:01.754][biodb::testContext]
biodb.INFO [2025-01-14 00:14:01.756][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 00:14:01.759][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-01-14 00:14:01.761][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 00:14:01.764][biodb::testContext]
biodb.INFO [2025-01-14 00:14:01.768][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-14 00:14:01.772][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-14 00:14:01.782][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:14:01.784][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-14 00:14:01.787][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-14 00:14:01.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.795][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-14 00:14:01.797][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-14 00:14:01.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.805][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-14 00:14:01.807][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-14 00:14:01.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.812][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.DEBUG[2025-01-14 00:14:01.815][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-14 00:14:01.817][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-14 00:14:01.819][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-14 00:14:01.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.828][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-14 00:14:01.830][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-14 00:14:01.832][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-14 00:14:01.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.840][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-14 00:14:01.843][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-14 00:14:01.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.851][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-14 00:14:01.853][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-14 00:14:01.855][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-14 00:14:01.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.863][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-14 00:14:01.866][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-14 00:14:01.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.874][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-14 00:14:01.876][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-14 00:14:01.879][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-14 00:14:01.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.888][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-14 00:14:01.891][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-14 00:14:01.893][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-14 00:14:01.895][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-14 00:14:01.898][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-14 00:14:01.900][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-14 00:14:01.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.908][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-14 00:14:01.911][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-14 00:14:01.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.919][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-14 00:14:01.921][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-14 00:14:01.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.929][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-14 00:14:01.931][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-14 00:14:01.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.940][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-14 00:14:01.942][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-14 00:14:01.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.950][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-14 00:14:01.952][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-14 00:14:01.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.960][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-14 00:14:01.962][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-14 00:14:01.985][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-14 00:14:01.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:01.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:01.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:01.993][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-14 00:14:01.995][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-14 00:14:01.997][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-14 00:14:01.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.006][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-14 00:14:02.010][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.013][self$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[2025-01-14 00:14:02.016][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.018][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:02.020][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.022][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.025][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.027][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.029][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 00:14:02.032][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:02.034][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.037][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-14 00:14:02.039][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:02.041][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.043][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.046][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:14:02.046][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:14:02.046][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:14:02.046][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 00:14:02.046][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 00:14:02.048][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:02.050][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:02.052][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:02.054][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:02.057][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:02.059][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:02.062][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.064][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.067][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:02.069][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:02.071][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.073][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.076][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-14 00:14:02.081][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.083][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 00:14:02.085][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.088][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:02.090][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.092][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.094][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.096][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.098][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 00:14:02.101][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:02.103][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.105][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-14 00:14:02.107][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:02.109][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.111][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.113][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:14:02.113][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:14:02.113][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:14:02.113][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 00:14:02.113][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 00:14:02.115][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:02.116][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:02.118][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:02.120][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:02.122][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:02.124][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:02.125][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.127][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.129][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:02.131][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:02.133][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.135][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.137][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-14 00:14:02.141][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.143][self$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[2025-01-14 00:14:02.145][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.147][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:02.149][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.152][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.154][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.156][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.158][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 00:14:02.160][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:02.163][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.165][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-14 00:14:02.167][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:02.169][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.171][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.173][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.175][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:02.178][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:02.180][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:02.182][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:02.184][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:02.185][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:02.187][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.189][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.191][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:02.193][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:02.196][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.198][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.201][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-14 00:14:02.205][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.208][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 00:14:02.210][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.212][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:02.215][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.217][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.219][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.222][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.224][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 00:14:02.227][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:02.229][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.232][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-14 00:14:02.234][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:02.236][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.238][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:02.240][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.242][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:02.245][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:02.247][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:02.249][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:02.251][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:02.253][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:02.255][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:02.257][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.259][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:02.261][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:02.264][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:02.266][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:02.269][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:14:02.270][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.272][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[2025-01-14 00:14:02.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.281][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[2025-01-14 00:14:02.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.322][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[2025-01-14 00:14:02.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.342][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[2025-01-14 00:14:02.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.372][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[2025-01-14 00:14:02.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.448][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-14 00:14:02.452][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-14 00:14:02.455][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-14 00:14:02.458][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-14 00:14:02.462][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-14 00:14:02.465][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-14 00:14:02.468][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-14 00:14:02.472][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-14 00:14:02.475][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-14 00:14:02.478][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-14 00:14:02.483][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 00:14:02.486][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-14 00:14:02.490][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-14 00:14:02.493][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-14 00:14:02.496][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-14 00:14:02.500][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-14 00:14:02.503][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-14 00:14:02.507][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-14 00:14:02.518][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-14 00:14:02.522][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-14 00:14:02.526][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-14 00:14:02.530][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-14 00:14:02.533][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-14 00:14:02.537][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-14 00:14:02.540][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-14 00:14:02.544][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-14 00:14:02.547][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-14 00:14:02.550][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-14 00:14:02.553][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-14 00:14:02.557][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-14 00:14:02.560][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-14 00:14:02.564][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-14 00:14:02.567][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-14 00:14:02.571][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-14 00:14:02.575][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-14 00:14:02.580][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-14 00:14:02.584][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-14 00:14:02.587][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-14 00:14:02.591][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-14 00:14:02.594][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-14 00:14:02.597][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-14 00:14:02.601][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-14 00:14:02.604][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-14 00:14:02.607][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-14 00:14:02.611][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-14 00:14:02.614][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-14 00:14:02.617][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-14 00:14:02.621][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-14 00:14:02.624][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-14 00:14:02.628][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-14 00:14:02.631][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-14 00:14:02.634][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-14 00:14:02.637][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-14 00:14:02.641][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-14 00:14:02.644][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-14 00:14:02.648][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-14 00:14:02.652][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-14 00:14:02.655][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-14 00:14:02.659][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-14 00:14:02.663][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-14 00:14:02.666][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-14 00:14:02.670][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-14 00:14:02.674][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-14 00:14:02.678][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-14 00:14:02.682][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-14 00:14:02.685][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-14 00:14:02.715][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-14 00:14:02.720][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-14 00:14:02.723][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-14 00:14:02.727][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-14 00:14:02.731][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-14 00:14:02.735][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-14 00:14:02.739][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-14 00:14:02.743][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-14 00:14:02.746][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-14 00:14:02.750][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-14 00:14:02.753][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-14 00:14:02.757][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-14 00:14:02.760][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-14 00:14:02.764][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-14 00:14:02.767][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-14 00:14:02.770][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-14 00:14:02.774][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-14 00:14:02.777][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-14 00:14:02.781][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-14 00:14:02.784][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:14:02.786][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.790][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:02.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:02.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:02.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:02.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:02.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:02.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:02.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:03.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:03.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:03.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:03.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:03.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:03.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:03.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:03.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:03.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:03.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:03.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:03.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:03.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:03.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:03.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:03.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:03.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:03.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:03.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:03.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:03.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:03.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:03.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:03.050][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-14 00:14:03.053][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-14 00:14:03.058][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:03.060][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-14 00:14:03.063][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:03.065][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:03.068][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:03.070][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:03.073][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:03.075][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-14 00:14:03.077][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-14 00:14:03.079][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:03.082][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:03.084][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-14 00:14:03.086][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:03.089][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-14 00:14:03.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-14 00:14:03.089][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-14 00:14:03.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-14 00:14:03.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-14 00:14:03.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-14 00:14:03.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-14 00:14:03.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-14 00:14:03.089][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-14 00:14:03.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-14 00:14:03.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-14 00:14:03.092][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:03.094][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:14:03.094][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:14:03.094][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:14:03.097][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-14 00:14:03.099][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:03.102][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:03.104][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:03.106][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:03.108][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:03.111][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:03.114][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-14 00:14:03.114][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-14 00:14:03.116][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:03.118][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:03.121][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:03.123][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-14 00:14:03.123][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-14 00:14:03.126][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-14 00:14:03.130][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 00:14:03.134][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-14 00:14:03.137][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-14 00:14:03.140][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-14 00:14:03.144][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-14 00:14:03.152][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-14 00:14:03.155][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-14 00:14:03.157][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-14 00:14:03.161][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-14 00:14:03.164][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 00:14:03.166][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 00:14:03.169][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-14 00:14:03.171][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-14 00:14:03.173][biodb::testThat]
biodb.INFO [2025-01-14 00:14:03.175][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-01-14 00:14:03.177][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:14:03.179][biodb::testThat]
biodb.DEBUG[2025-01-14 00:14:03.186][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-14 00:14:03.194][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-14 00:14:03.197][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-14 00:14:03.200][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2025-01-14 00:14:03.601][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2025-01-14 00:14:04.093][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.INFO [2025-01-14 00:14:04.097][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2025-01-14 00:14:04.105][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2025-01-14 00:14:04.114][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2025-01-14 00:14:04.125][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-14 00:14:04.136][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-14 00:14:04.138][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-14 00:14:04.144][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-14 00:14:04.568][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-14 00:14:04.986][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-14 00:14:04.991][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2025-01-14 00:14:04.999][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2025-01-14 00:14:05.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:05.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:05.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:05.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:05.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:05.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:05.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:05.029][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[2025-01-14 00:14:05.037][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-14 00:14:05.040][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-14 00:14:05.044][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-14 00:14:05.468][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-14 00:14:05.879][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-14 00:14:05.884][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2025-01-14 00:14:05.981][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2025-01-14 00:14:05.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:05.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:05.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:06.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:06.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:06.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:06.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:06.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:06.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:06.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:06.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:06.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:06.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:06.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:06.083][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-14 00:14:06.091][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:14:06.094][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-01-14 00:14:06.098][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:14:06.101][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-01-14 00:14:06.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:06.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:06.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:06.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:06.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:06.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:06.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:06.134][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-14 00:14:06.143][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:14:06.146][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-01-14 00:14:06.149][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:14:06.153][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-01-14 00:14:06.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:06.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:06.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:06.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:06.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:06.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:06.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:06.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:06.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:06.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:06.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:06.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:06.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:06.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:06.218][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-14 00:14:06.227][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:14:06.230][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-01-14 00:14:06.233][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:14:06.236][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-01-14 00:14:06.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:06.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:06.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:06.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:06.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:06.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:06.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:06.268][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-14 00:14:06.277][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:14:06.280][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-01-14 00:14:06.283][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:14:06.286][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-01-14 00:14:06.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:06.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:06.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:06.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:06.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:06.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:06.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:06.321][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-14 00:14:06.330][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-14 00:14:06.332][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-14 00:14:06.337][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-14 00:14:06.747][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-14 00:14:07.153][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-14 00:14:07.157][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2025-01-14 00:14:07.167][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2025-01-14 00:14:07.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:07.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:07.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:07.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:07.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:07.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:07.193][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.INFO [2025-01-14 00:14:07.209][biodb::testThat]
biodb.INFO [2025-01-14 00:14:07.211][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-01-14 00:14:07.214][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:14:07.216][biodb::testThat]
biodb.DEBUG[2025-01-14 00:14:07.223][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[2025-01-14 00:14:07.232][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-14 00:14:07.235][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-14 00:14:07.240][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-14 00:14:07.666][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-14 00:14:08.078][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-14 00:14:08.083][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2025-01-14 00:14:08.093][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2025-01-14 00:14:08.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:08.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:08.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:08.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:08.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:08.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:08.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:08.128][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-14 00:14:08.137][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-14 00:14:08.139][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-14 00:14:08.144][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-14 00:14:08.566][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-14 00:14:08.978][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-14 00:14:08.983][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2025-01-14 00:14:08.992][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2025-01-14 00:14:08.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:08.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:09.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:09.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.021][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.INFO [2025-01-14 00:14:09.046][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-14 00:14:09.055][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-14 00:14:09.058][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-14 00:14:09.060][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-14 00:14:09.062][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:09.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:09.067][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.071][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-14 00:14:09.082][biodb::testContext]
biodb.INFO [2025-01-14 00:14:09.084][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 00:14:09.086][biodb::testContext] Test context - Test web services
biodb.INFO [2025-01-14 00:14:09.089][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 00:14:09.091][biodb::testContext]
biodb.INFO [2025-01-14 00:14:09.096][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-14 00:14:09.100][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-14 00:14:09.108][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:14:09.111][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-14 00:14:09.113][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-14 00:14:09.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.121][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-14 00:14:09.124][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-14 00:14:09.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.132][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-14 00:14:09.134][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-14 00:14:09.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.142][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-14 00:14:09.145][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-14 00:14:09.147][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-14 00:14:09.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.152][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[2025-01-14 00:14:09.155][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-14 00:14:09.157][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-14 00:14:09.159][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-14 00:14:09.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.167][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-14 00:14:09.169][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-14 00:14:09.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.177][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-14 00:14:09.180][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-14 00:14:09.182][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-14 00:14:09.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.190][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-14 00:14:09.193][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-14 00:14:09.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.198][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[2025-01-14 00:14:09.201][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-14 00:14:09.203][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-14 00:14:09.205][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-14 00:14:09.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.214][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-14 00:14:09.216][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-14 00:14:09.219][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-14 00:14:09.221][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-14 00:14:09.223][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-14 00:14:09.225][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-14 00:14:09.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.233][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-14 00:14:09.236][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-14 00:14:09.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.244][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-14 00:14:09.246][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-14 00:14:09.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.264][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.DEBUG[2025-01-14 00:14:09.266][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-14 00:14:09.268][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-14 00:14:09.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.276][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-14 00:14:09.279][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-14 00:14:09.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.285][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[2025-01-14 00:14:09.287][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-14 00:14:09.290][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-14 00:14:09.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.325][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-14 00:14:09.328][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-14 00:14:09.345][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-14 00:14:09.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.351][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[2025-01-14 00:14:09.354][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-14 00:14:09.356][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-14 00:14:09.359][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-14 00:14:09.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.375][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-14 00:14:09.379][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.384][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-14 00:14:09.387][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.411][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:09.414][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.417][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.419][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.421][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.423][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 00:14:09.426][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:09.428][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.431][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-14 00:14:09.433][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:09.435][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.438][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.440][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:14:09.440][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:14:09.440][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:14:09.440][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 00:14:09.440][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 00:14:09.442][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:09.445][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:09.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:09.449][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:09.452][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:09.454][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:09.456][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.458][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.459][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:09.461][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:09.463][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.466][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.468][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-14 00:14:09.473][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.475][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 00:14:09.477][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.480][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:09.481][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.483][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.485][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.488][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.490][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 00:14:09.492][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:09.494][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.497][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-14 00:14:09.499][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:09.502][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.504][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.507][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:14:09.507][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:14:09.507][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:14:09.507][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 00:14:09.507][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 00:14:09.509][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:09.511][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:09.513][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:09.515][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:09.517][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:09.519][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:09.521][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.523][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.526][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:09.528][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:09.530][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.533][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.536][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-14 00:14:09.540][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.543][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-14 00:14:09.545][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.547][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:09.550][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.552][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.554][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.557][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.559][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 00:14:09.561][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:09.564][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.566][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-14 00:14:09.568][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:09.570][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.572][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.575][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.577][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:09.578][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:09.579][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:09.582][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:09.584][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:09.586][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:09.588][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.591][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.593][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:09.595][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:09.598][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.600][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.602][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-14 00:14:09.607][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.609][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 00:14:09.612][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.614][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:09.617][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.620][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.622][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.624][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.627][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 00:14:09.629][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:09.632][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.634][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-14 00:14:09.637][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:09.639][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.641][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:09.644][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.646][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:09.648][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:09.650][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:09.653][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:09.655][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:09.657][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:09.660][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:09.662][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.665][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:09.667][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:09.669][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:09.672][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:09.675][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:14:09.677][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.725][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[2025-01-14 00:14:09.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.762][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.DEBUG[2025-01-14 00:14:09.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.801][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.DEBUG[2025-01-14 00:14:09.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.878][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[2025-01-14 00:14:09.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:09.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:09.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:09.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:09.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:09.912][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-14 00:14:09.915][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-14 00:14:09.918][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-14 00:14:09.922][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-14 00:14:09.925][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-14 00:14:09.928][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-14 00:14:09.931][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-14 00:14:09.934][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-14 00:14:09.937][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-14 00:14:09.940][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-14 00:14:09.944][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 00:14:09.947][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-14 00:14:09.950][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-14 00:14:09.953][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-14 00:14:09.956][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-14 00:14:09.960][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-14 00:14:09.963][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-14 00:14:09.967][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-14 00:14:09.970][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-14 00:14:09.973][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-14 00:14:09.977][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-14 00:14:09.981][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-14 00:14:09.984][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-14 00:14:09.988][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-14 00:14:09.991][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-14 00:14:09.994][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-14 00:14:09.997][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-14 00:14:10.001][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-14 00:14:10.004][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-14 00:14:10.007][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-14 00:14:10.011][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-14 00:14:10.014][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-14 00:14:10.017][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-14 00:14:10.020][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-14 00:14:10.024][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-14 00:14:10.027][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-14 00:14:10.030][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-14 00:14:10.034][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-14 00:14:10.037][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-14 00:14:10.041][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-14 00:14:10.044][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-14 00:14:10.048][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-14 00:14:10.051][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-14 00:14:10.055][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-14 00:14:10.058][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-14 00:14:10.062][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-14 00:14:10.066][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-14 00:14:10.069][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-14 00:14:10.073][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-14 00:14:10.076][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-14 00:14:10.080][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-14 00:14:10.083][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-14 00:14:10.102][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-14 00:14:10.105][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-14 00:14:10.109][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-14 00:14:10.112][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-14 00:14:10.116][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-14 00:14:10.119][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-14 00:14:10.123][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-14 00:14:10.127][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-14 00:14:10.130][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-14 00:14:10.134][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-14 00:14:10.137][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-14 00:14:10.141][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-14 00:14:10.145][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-14 00:14:10.149][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-14 00:14:10.153][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-14 00:14:10.156][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-14 00:14:10.159][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-14 00:14:10.163][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-14 00:14:10.166][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-14 00:14:10.170][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-14 00:14:10.173][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-14 00:14:10.177][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-14 00:14:10.181][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-14 00:14:10.184][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-14 00:14:10.197][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-14 00:14:10.200][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-14 00:14:10.204][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-14 00:14:10.216][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-14 00:14:10.219][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-14 00:14:10.223][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-14 00:14:10.231][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-14 00:14:10.234][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-14 00:14:10.240][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-14 00:14:10.241][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:14:10.243][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.247][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.276][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[2025-01-14 00:14:10.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.322][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[2025-01-14 00:14:10.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.350][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[2025-01-14 00:14:10.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.408][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[2025-01-14 00:14:10.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.422][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[2025-01-14 00:14:10.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.482][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[2025-01-14 00:14:10.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:10.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:10.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:10.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:10.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:10.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:10.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:10.501][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-14 00:14:10.505][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-14 00:14:10.520][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:10.523][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-14 00:14:10.526][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:10.528][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:10.531][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:10.533][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:10.536][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:10.539][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-14 00:14:10.542][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-14 00:14:10.545][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:10.548][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:10.551][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-14 00:14:10.553][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:10.556][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-14 00:14:10.556][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-14 00:14:10.556][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-14 00:14:10.556][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-14 00:14:10.556][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-14 00:14:10.556][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-14 00:14:10.556][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-14 00:14:10.556][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-14 00:14:10.556][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-14 00:14:10.556][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-14 00:14:10.556][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-14 00:14:10.560][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:10.562][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:14:10.562][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:14:10.562][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:14:10.565][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-14 00:14:10.567][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:10.570][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:10.572][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:10.574][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:10.576][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:10.579][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:10.580][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-14 00:14:10.580][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-14 00:14:10.583][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:10.585][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:10.586][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:10.589][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-14 00:14:10.589][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-14 00:14:10.592][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-14 00:14:10.595][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 00:14:10.599][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-14 00:14:10.602][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-14 00:14:10.604][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-14 00:14:10.607][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-14 00:14:10.614][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-14 00:14:10.617][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-14 00:14:10.619][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-14 00:14:10.626][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-14 00:14:10.629][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 00:14:10.640][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 00:14:10.644][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-14 00:14:10.650][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-14 00:14:10.653][biodb::testThat]
biodb.INFO [2025-01-14 00:14:10.657][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-01-14 00:14:10.659][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:14:10.661][biodb::testThat]
biodb.DEBUG[2025-01-14 00:14:10.668][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-14 00:14:10.676][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:14:10.679][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-14 00:14:10.681][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:14:10.684][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-14 00:14:10.692][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[2025-01-14 00:14:10.699][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-14 00:14:10.702][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-14 00:14:10.706][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-01-14 00:14:11.118][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-01-14 00:14:11.535][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-01-14 00:14:11.540][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2025-01-14 00:14:11.551][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2025-01-14 00:14:11.572][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-14 00:14:11.575][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-14 00:14:11.577][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-14 00:14:11.580][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-14 00:14:11.582][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:11.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:11.586][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:11.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:11.590][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-14 00:14:11.609][biodb::testContext]
biodb.INFO [2025-01-14 00:14:11.612][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 00:14:11.614][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-01-14 00:14:11.616][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-14 00:14:11.620][biodb::testContext]
biodb.INFO [2025-01-14 00:14:11.625][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-14 00:14:11.629][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-14 00:14:11.637][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:14:11.643][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-14 00:14:11.645][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-14 00:14:11.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.659][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[2025-01-14 00:14:11.661][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-14 00:14:11.663][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-14 00:14:11.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.676][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-14 00:14:11.679][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-14 00:14:11.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.687][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-14 00:14:11.689][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-14 00:14:11.691][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-14 00:14:11.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.699][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-14 00:14:11.702][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-14 00:14:11.704][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-14 00:14:11.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.709][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[2025-01-14 00:14:11.712][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-14 00:14:11.714][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-14 00:14:11.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.724][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-14 00:14:11.727][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-14 00:14:11.729][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-14 00:14:11.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.740][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-14 00:14:11.743][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-14 00:14:11.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.751][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-14 00:14:11.754][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-14 00:14:11.757][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-14 00:14:11.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.765][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-14 00:14:11.769][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-14 00:14:11.772][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-14 00:14:11.774][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-14 00:14:11.777][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-14 00:14:11.779][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-14 00:14:11.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.789][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-14 00:14:11.791][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-14 00:14:11.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.801][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-14 00:14:11.804][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-14 00:14:11.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.813][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-14 00:14:11.816][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-14 00:14:11.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.826][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-14 00:14:11.829][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-14 00:14:11.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.838][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-14 00:14:11.842][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-14 00:14:11.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.854][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-14 00:14:11.856][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-14 00:14:11.875][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-14 00:14:11.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.884][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-14 00:14:11.886][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-14 00:14:11.904][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-14 00:14:11.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:11.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:11.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:11.914][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-14 00:14:11.918][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:11.920][self$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[2025-01-14 00:14:11.923][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:11.925][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:11.927][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:11.930][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:11.932][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:11.934][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:11.937][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 00:14:11.940][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:11.942][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:11.945][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-14 00:14:11.947][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:11.950][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:11.952][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:11.954][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:14:11.954][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:14:11.954][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:14:11.954][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 00:14:11.954][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 00:14:11.957][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:11.959][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:11.961][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:11.964][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:11.966][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:11.969][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:11.971][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:11.992][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:11.994][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:12.038][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:12.041][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:12.043][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.046][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-14 00:14:12.050][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:12.052][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 00:14:12.054][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.057][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:12.059][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.061][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:12.063][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:12.066][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:12.068][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 00:14:12.070][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:12.072][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.074][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-14 00:14:12.076][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:12.078][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.080][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.081][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:14:12.081][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:14:12.081][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:14:12.081][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-14 00:14:12.081][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-14 00:14:12.084][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:12.086][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:12.088][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:12.090][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:12.092][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:12.094][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:12.096][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:12.098][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.101][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:12.104][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:12.106][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:12.108][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.111][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-14 00:14:12.115][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.120][self$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[2025-01-14 00:14:12.124][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.126][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:12.128][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.139][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:12.142][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:12.144][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:12.152][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-14 00:14:12.155][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:12.157][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:12.161][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-14 00:14:12.164][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:12.167][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.169][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.173][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.176][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:12.178][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:12.180][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:12.186][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:12.188][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:12.190][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:12.193][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:12.196][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.199][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:12.201][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:12.204][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:12.206][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.209][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-14 00:14:12.213][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.216][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-14 00:14:12.218][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.220][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:12.222][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.225][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:12.227][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:12.229][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-14 00:14:12.232][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-14 00:14:12.234][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:12.238][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:12.241][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-14 00:14:12.244][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:12.246][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.250][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:12.253][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.256][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-14 00:14:12.259][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:12.261][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:12.264][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:12.266][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:12.268][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:12.273][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:12.276][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.280][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:12.282][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:12.285][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:12.287][self$setPropertyValue]
biodb.DEBUG[2025-01-14 00:14:12.290][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:14:12.293][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.295][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[2025-01-14 00:14:12.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.329][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[2025-01-14 00:14:12.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.717][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[2025-01-14 00:14:12.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.732][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[2025-01-14 00:14:12.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.794][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.DEBUG[2025-01-14 00:14:12.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:12.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:12.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:12.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:12.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:12.830][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-14 00:14:12.833][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-14 00:14:12.837][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-14 00:14:12.840][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-14 00:14:12.844][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-14 00:14:12.848][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-14 00:14:12.851][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-14 00:14:12.855][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-14 00:14:12.859][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-14 00:14:12.862][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-14 00:14:12.866][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 00:14:12.869][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-14 00:14:12.873][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-14 00:14:12.877][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-14 00:14:12.882][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-14 00:14:12.886][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-14 00:14:12.889][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-14 00:14:12.893][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-14 00:14:12.896][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-14 00:14:12.900][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-14 00:14:12.904][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-14 00:14:12.908][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-14 00:14:12.911][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-14 00:14:12.915][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-14 00:14:12.919][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-14 00:14:12.922][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-14 00:14:12.926][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-14 00:14:12.929][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-14 00:14:12.933][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-14 00:14:12.936][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-14 00:14:12.940][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-14 00:14:12.943][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-14 00:14:12.947][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-14 00:14:12.951][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-14 00:14:12.955][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-14 00:14:12.959][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-14 00:14:12.963][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-14 00:14:12.967][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-14 00:14:12.970][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-14 00:14:12.974][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-14 00:14:12.977][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-14 00:14:12.981][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-14 00:14:12.984][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-14 00:14:12.988][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-14 00:14:12.991][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-14 00:14:12.995][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-14 00:14:12.999][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-14 00:14:13.003][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-14 00:14:13.007][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-14 00:14:13.012][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-14 00:14:13.016][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-14 00:14:13.020][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-14 00:14:13.034][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-14 00:14:13.038][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-14 00:14:13.088][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-14 00:14:13.092][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-14 00:14:13.103][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-14 00:14:13.107][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-14 00:14:13.111][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-14 00:14:13.114][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-14 00:14:13.118][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-14 00:14:13.121][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-14 00:14:13.127][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-14 00:14:13.131][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-14 00:14:13.138][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-14 00:14:13.142][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-14 00:14:13.152][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-14 00:14:13.156][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-14 00:14:13.186][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-14 00:14:13.189][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-14 00:14:13.197][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-14 00:14:13.201][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-14 00:14:13.204][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-14 00:14:13.208][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-14 00:14:13.212][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-14 00:14:13.215][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-14 00:14:13.219][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-14 00:14:13.223][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-14 00:14:13.227][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-14 00:14:13.231][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-14 00:14:13.234][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-14 00:14:13.247][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-14 00:14:13.251][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-14 00:14:13.254][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-14 00:14:13.258][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-14 00:14:13.260][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-14 00:14:13.263][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.267][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.269][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[2025-01-14 00:14:13.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.286][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[2025-01-14 00:14:13.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.483][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[2025-01-14 00:14:13.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-14 00:14:13.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.534][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-01-14 00:14:13.537][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-01-14 00:14:13.541][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:13.544][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-14 00:14:13.546][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:13.548][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-14 00:14:13.551][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:13.554][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-14 00:14:13.557][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:13.559][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-01-14 00:14:13.561][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-14 00:14:13.564][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-14 00:14:13.567][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:13.569][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-01-14 00:14:13.586][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-14 00:14:13.588][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-01-14 00:14:13.588][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-01-14 00:14:13.588][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-01-14 00:14:13.588][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-01-14 00:14:13.588][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-01-14 00:14:13.588][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-01-14 00:14:13.588][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-01-14 00:14:13.588][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-01-14 00:14:13.588][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-01-14 00:14:13.588][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-01-14 00:14:13.588][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-01-14 00:14:13.595][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-14 00:14:13.598][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-14 00:14:13.598][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-14 00:14:13.598][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-14 00:14:13.601][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-14 00:14:13.604][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:13.607][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:13.609][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-14 00:14:13.614][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-14 00:14:13.616][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-14 00:14:13.618][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-14 00:14:13.620][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-14 00:14:13.620][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-01-14 00:14:13.627][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-14 00:14:13.629][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-14 00:14:13.630][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-14 00:14:13.632][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-01-14 00:14:13.632][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-01-14 00:14:13.635][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-14 00:14:13.641][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-14 00:14:13.644][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-01-14 00:14:13.648][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-14 00:14:13.652][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-14 00:14:13.656][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-14 00:14:13.667][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-01-14 00:14:13.669][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-01-14 00:14:13.673][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-01-14 00:14:13.677][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-01-14 00:14:13.680][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 00:14:13.682][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-14 00:14:13.685][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-01-14 00:14:13.688][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-01-14 00:14:13.691][biodb::testThat]
biodb.INFO [2025-01-14 00:14:13.700][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-01-14 00:14:13.702][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-14 00:14:13.705][biodb::testThat]
biodb.DEBUG[2025-01-14 00:14:13.723][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-01-14 00:14:13.731][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:14:13.735][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-01-14 00:14:13.739][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:14:13.743][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-01-14 00:14:13.751][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-01-14 00:14:13.759][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-01-14 00:14:13.762][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-01-14 00:14:13.765][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-14 00:14:13.769][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-01-14 00:14:13.779][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-01-14 00:14:13.781][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-01-14 00:14:13.785][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-01-14 00:14:13.789][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-14 00:14:13.792][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-14 00:14:13.795][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-01-14 00:14:13.798][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-01-14 00:14:13.800][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-01-14 00:14:13.803][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-01-14 00:14:13.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:13.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:13.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:13.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:13.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:13.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:13.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-14 00:14:13.838][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2025-01-14 00:14:13.845][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-01-14 00:14:13.847][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-01-14 00:14:13.850][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2025-01-14 00:14:14.278][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2025-01-14 00:14:14.977][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-01-14 00:14:14.991][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2025-01-14 00:14:15.064][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2025-01-14 00:14:15.071][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2025-01-14 00:14:15.076][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-01-14 00:14:15.079][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-01-14 00:14:15.082][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-01-14 00:14:15.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-14 00:14:15.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:15.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:15.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:15.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:15.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:15.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-14 00:14:15.117][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:15.120][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:15.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.124][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:15.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:15.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.137][ef$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:14:15.139][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:14:15.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.144][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.147][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-01-14 00:14:15.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-01-14 00:14:15.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.156][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:14:15.159][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:14:15.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.163][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.166][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-14 00:14:15.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-14 00:14:15.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.176][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-14 00:14:15.179][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-14 00:14:15.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.183][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.186][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-14 00:14:15.189][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-14 00:14:15.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.193][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.196][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:14:15.199][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:14:15.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.203][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.206][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:14:15.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-14 00:14:15.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.243][ef$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:14:15.246][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:14:15.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.252][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.255][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-01-14 00:14:15.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-14 00:14:15.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.268][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:14:15.271][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:14:15.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.278][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:14:15.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-14 00:14:15.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.295][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:14:15.298][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:14:15.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.303][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.307][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-14 00:14:15.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-14 00:14:15.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.318][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:14:15.320][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:14:15.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.326][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.329][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-01-14 00:14:15.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-01-14 00:14:15.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.354][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:14:15.357][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:14:15.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.361][ef$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.364][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-14 00:14:15.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-14 00:14:15.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:14:15.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:14:15.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:14:15.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:14:15.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:15.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:15.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-14 00:14:15.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-14 00:14:15.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:15.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:15.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:15.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:15.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:15.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:15.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:15.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:15.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:15.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:15.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-14 00:14:15.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-14 00:14:15.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-14 00:14:15.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-14 00:14:15.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-14 00:14:15.466][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-01-14 00:14:15.474][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-14 00:14:15.477][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-01-14 00:14:15.480][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-01-14 00:14:15.482][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-14 00:14:15.484][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-14 00:14:15.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-14 00:14:15.488][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-14 00:14:15.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-14 00:14:15.493][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-14 00:14:15.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 361 ]
> 
> proc.time()
   user  system elapsed 
 37.048   1.804  54.670

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn 4.781 1.31513.798
ChebiEntry0.7960.0230.870