Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-14 13:07:30 -0500 (Fri, 14 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4327
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4076
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4137
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for biodbHmdb on machv2


To the developers/maintainers of the biodbHmdb package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 177/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbHmdb 1.0.3  (landing page)
Pierrick Roger
Snapshot Date: 2022-01-13 01:55:04 -0500 (Thu, 13 Jan 2022)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: RELEASE_3_14
git_last_commit: b0dabfe
git_last_commit_date: 2021-11-24 05:04:38 -0500 (Wed, 24 Nov 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: biodbHmdb
Version: 1.0.3
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.0.3.tar.gz
StartedAt: 2022-01-13 10:38:37 -0500 (Thu, 13 Jan 2022)
EndedAt: 2022-01-13 10:40:09 -0500 (Thu, 13 Jan 2022)
EllapsedTime: 91.5 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbHmdb.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.0.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.0.3’
* 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 ‘biodbHmdb’ 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 R 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.14-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.



Installation output

biodbHmdb.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/testthat/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/testthat/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c Tag.cpp -o Tag.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/testthat/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/testthat/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c test-100-tag.cpp -o test-100-tag.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/testthat/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c test-runner.cpp -o test-runner.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o biodbHmdb.so RcppExports.o Tag.o extractXmlEntries.o test-100-tag.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.1/Resources/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** 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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (64-bit)

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(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2022-01-13 10:39:44.112][biodb::testContext] 
biodb.INFO [2022-01-13 10:39:44.128][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:39:44.130][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2022-01-13 10:39:44.131][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:39:44.132][biodb::testContext] 
biodb.INFO [2022-01-13 10:39:44.135][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:44.137][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2022-01-13 10:39:44.139][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:44.142][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:44.305][biodb::testContext] 
biodb.INFO [2022-01-13 10:39:44.307][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:39:44.310][biodb::testContext] Test context - Generic tests
biodb.INFO [2022-01-13 10:39:44.312][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:39:44.314][biodb::testContext] 
biodb.INFO [2022-01-13 10:39:44.339][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:39:44.342][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 10:39:44.352][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:39:44.353][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 10:39:44.354][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 10:39:44.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.359][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 10:39:44.400][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 10:39:44.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.406][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.DEBUG[2022-01-13 10:39:44.407][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 10:39:44.409][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 10:39:44.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.414][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 10:39:44.417][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 10:39:44.419][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 10:39:44.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.426][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 10:39:44.429][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 10:39:44.431][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 10:39:44.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.439][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 10:39:44.441][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 10:39:44.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.462][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 10:39:44.464][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 10:39:44.467][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 10:39:44.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.472][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 10:39:44.474][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 10:39:44.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.481][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 10:39:44.483][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 10:39:44.485][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 10:39:44.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.491][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:39:44.494][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 10:39:44.496][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 10:39:44.497][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 10:39:44.498][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 10:39:44.500][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 10:39:44.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.507][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 10:39:44.509][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 10:39:44.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.516][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 10:39:44.518][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 10:39:44.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.525][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 10:39:44.527][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 10:39:44.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.534][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 10:39:44.536][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 10:39:44.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.542][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 10:39:44.544][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 10:39:44.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.552][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:39:44.554][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 10:39:44.564][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-01-13 10:39:44.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.572][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 10:39:44.574][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 10:39:44.576][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 10:39:44.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.588][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:39:44.655][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.687][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-13 10:39:44.689][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.691][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:44.693][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.694][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.696][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.698][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.700][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:39:44.703][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:44.705][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.707][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 10:39:44.710][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:44.712][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.714][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.716][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:39:44.716][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:39:44.716][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:39:44.716][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:39:44.716][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:39:44.718][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:44.719][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:44.721][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:44.723][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:44.725][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:44.727][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:44.728][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.730][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.732][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:44.734][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:44.736][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.738][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.740][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 10:39:44.744][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.745][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:39:44.746][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.747][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:44.748][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.749][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.751][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.752][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.753][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:39:44.754][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:44.755][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.756][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 10:39:44.758][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:44.759][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.760][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.761][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:39:44.761][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:39:44.761][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:39:44.761][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:39:44.761][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:39:44.763][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:44.764][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:44.765][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:44.766][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:44.767][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:44.768][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:44.769][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.770][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.771][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:44.772][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:44.773][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.775][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.776][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:39:44.778][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.779][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-13 10:39:44.780][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.782][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:44.783][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.784][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.785][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.786][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.788][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:39:44.789][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:44.790][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.791][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 10:39:44.792][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:44.794][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.795][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.796][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.797][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:44.798][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:44.800][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:44.802][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:44.804][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:44.805][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:44.807][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.809][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.811][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:44.813][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:44.815][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.817][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.819][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 10:39:44.823][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.825][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:39:44.827][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.829][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:44.831][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.833][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.835][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.836][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.838][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:39:44.840][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:44.842][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.844][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 10:39:44.846][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:44.848][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.850][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:44.852][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.854][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:44.856][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:44.858][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:44.860][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:44.862][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:44.864][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:44.866][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:44.868][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.870][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:44.872][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:44.874][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:44.876][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:44.885][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:39:44.896][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.910][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[2022-01-13 10:39:44.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:44.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:44.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:44.995][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[2022-01-13 10:39:44.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:44.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:44.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.012][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 10:39:45.020][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 10:39:45.023][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 10:39:45.026][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 10:39:45.029][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 10:39:45.032][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:39:45.035][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 10:39:45.038][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 10:39:45.041][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 10:39:45.044][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:39:45.047][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:39:45.049][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 10:39:45.052][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 10:39:45.055][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 10:39:45.058][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 10:39:45.061][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:39:45.064][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 10:39:45.067][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 10:39:45.070][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 10:39:45.073][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 10:39:45.076][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 10:39:45.079][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 10:39:45.082][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 10:39:45.084][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 10:39:45.087][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 10:39:45.090][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 10:39:45.093][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 10:39:45.095][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 10:39:45.098][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 10:39:45.101][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 10:39:45.104][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 10:39:45.106][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 10:39:45.109][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 10:39:45.112][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 10:39:45.115][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 10:39:45.116][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 10:39:45.118][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 10:39:45.120][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 10:39:45.122][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 10:39:45.123][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 10:39:45.126][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 10:39:45.128][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 10:39:45.131][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 10:39:45.135][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 10:39:45.137][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 10:39:45.140][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 10:39:45.141][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 10:39:45.144][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 10:39:45.146][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 10:39:45.149][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 10:39:45.152][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 10:39:45.154][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 10:39:45.156][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 10:39:45.157][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 10:39:45.159][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 10:39:45.161][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 10:39:45.163][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 10:39:45.166][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 10:39:45.169][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 10:39:45.172][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 10:39:45.175][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 10:39:45.178][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 10:39:45.180][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 10:39:45.183][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 10:39:45.186][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 10:39:45.189][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 10:39:45.192][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 10:39:45.195][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 10:39:45.197][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 10:39:45.200][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 10:39:45.202][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 10:39:45.205][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 10:39:45.208][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 10:39:45.210][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 10:39:45.213][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 10:39:45.216][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 10:39:45.219][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 10:39:45.222][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 10:39:45.225][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 10:39:45.228][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 10:39:45.231][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 10:39:45.234][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 10:39:45.237][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 10:39:45.249][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 10:39:45.252][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:39:45.259][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:39:45.261][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.263][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.264][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[2022-01-13 10:39:45.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.295][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[2022-01-13 10:39:45.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.315][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.DEBUG[2022-01-13 10:39:45.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.350][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[2022-01-13 10:39:45.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.371][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[2022-01-13 10:39:45.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.379][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[2022-01-13 10:39:45.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.393][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[2022-01-13 10:39:45.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:45.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:45.463][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-01-13 10:39:45.482][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:45.486][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:45.488][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-13 10:39:45.490][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:45.492][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:45.494][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:45.495][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-01-13 10:39:45.497][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:45.499][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:45.500][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-01-13 10:39:45.501][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:45.503][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:45.505][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-01-13 10:39:45.507][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-01-13 10:39:45.510][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-01-13 10:39:45.512][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:45.514][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:39:45.514][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-01-13 10:39:45.516][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-01-13 10:39:45.518][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:45.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:45.521][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:45.523][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:45.524][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:45.526][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:45.527][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-13 10:39:45.527][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-01-13 10:39:45.529][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:45.531][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:45.532][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:45.534][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:45.546][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:39:45.550][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:39:45.553][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:39:45.556][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:39:45.597][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:45.600][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-01-13 10:39:45.609][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:45.617][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-13 10:39:45.626][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:45.629][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:45.631][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-01-13 10:39:45.633][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-01-13 10:39:45.636][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-13 10:39:45.636][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-01-13 10:39:45.638][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:45.639][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:45.641][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-01-13 10:39:45.643][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-01-13 10:39:45.645][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:45.683][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-13 10:39:45.686][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:45.688][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:45.691][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-13 10:39:45.693][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:45.695][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-01-13 10:39:45.734][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:45.736][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2022-01-13 10:39:45.738][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:45.740][biodb::testThat] 
biodb.TRACE[2022-01-13 10:39:45.757][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2022-01-13 10:39:45.767][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-13 10:39:45.769][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-13 10:39:45.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:45.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:45.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:45.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:45.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:45.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:45.798][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.TRACE[2022-01-13 10:39:45.818][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:45.819][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:45.821][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.822][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:45.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:45.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:45.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:45.865][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:45.867][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:45.868][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.870][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:45.917][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:45.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:45.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:45.927][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:45.928][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:45.929][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.930][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:45.932][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:45.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:45.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:45.942][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:45.944][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:45.946][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.948][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:45.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:45.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:45.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:45.964][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:45.965][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:45.967][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.969][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:45.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:45.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:45.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:45.986][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:45.988][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:45.990][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.992][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:45.994][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:45.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:45.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:45.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.008][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:46.010][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:46.012][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.014][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.016][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:46.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:46.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.031][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:46.034][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:46.036][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.038][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.040][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:46.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:46.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.056][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:46.058][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:46.060][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.062][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.064][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:46.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:46.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.081][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:46.083][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:46.085][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.087][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.090][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:46.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:46.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.105][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:46.108][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:46.109][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.111][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:46.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:46.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.129][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.132][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.133][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.135][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.162][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:46.165][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:46.166][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.168][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:46.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:46.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.182][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:46.184][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:46.186][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.188][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:46.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:46.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.204][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:46.206][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:46.208][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.209][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.212][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:46.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:46.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.228][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:46.230][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:46.232][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.234][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.236][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:46.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:46.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.245][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-01-13 10:39:46.247][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:46.248][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.249][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.250][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-01-13 10:39:46.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:46.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:46.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:46.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:46.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:46.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:46.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:46.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.333][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:46.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:46.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.341][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:46.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:46.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.349][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:46.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:46.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.357][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:46.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:46.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.365][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:46.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:46.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.373][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:46.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:46.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:46.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:46.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:46.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:46.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:46.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:46.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:46.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:46.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:46.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:46.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:46.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:46.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.427][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:46.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:46.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.435][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:46.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:46.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.443][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:46.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:46.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.452][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:46.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:46.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.461][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:46.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:46.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.469][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:46.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:46.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.479][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:46.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:46.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.488][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:46.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:46.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.496][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:46.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:46.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.504][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:46.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:46.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.520][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:46.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:46.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.527][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:46.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:46.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.531][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:46.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:46.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.537][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:46.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:46.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.544][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:46.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:46.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.552][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:46.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:46.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:46.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:46.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.569][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:46.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:46.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.577][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.600][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:46.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:46.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.608][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:46.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:46.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.616][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:46.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:46.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:46.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:46.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:46.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:46.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:46.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:46.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:46.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:46.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.659][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:46.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:46.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:46.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:46.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.675][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:46.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:46.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.683][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:46.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:46.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.691][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:46.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:46.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.699][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:46.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:46.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.708][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:46.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:46.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.717][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:46.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:46.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.724][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-13 10:39:46.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.747][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.755][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-13 10:39:46.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:46.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.808][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:46.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:46.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:46.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:46.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.823][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:46.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:46.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:46.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:46.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:46.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:46.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.855][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:46.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:46.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.863][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:46.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:46.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:46.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:46.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.877][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:46.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:46.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:46.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:46.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:46.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:46.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:46.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:46.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:46.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:46.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:46.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:46.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:46.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:46.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:46.941][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2022-01-13 10:39:46.953][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:39:46.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:39:46.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.961][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:39:46.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:39:46.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.967][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:39:46.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:39:46.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:46.975][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:39:46.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:39:46.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:46.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.027][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:47.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:47.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.086][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:47.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:47.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.094][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:47.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:47.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.103][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:47.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:47.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.162][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.163][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.165][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.166][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.205][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.207][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.208][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.209][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.227][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:47.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:47.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.235][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:47.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:47.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.243][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:47.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:47.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.251][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:47.253][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:47.255][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.256][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.257][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:47.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:47.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.287][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.288][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.289][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.290][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.306][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:47.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:47.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.312][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:47.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:47.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.343][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:47.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:47.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.348][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:47.349][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:47.350][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.351][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.352][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:47.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:47.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:47.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:47.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:47.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:47.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.384][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:47.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:47.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.392][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:47.394][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:47.396][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.398][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:47.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:47.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.417][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:47.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:47.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.425][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:47.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:47.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.434][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:47.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:47.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.442][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:47.444][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:47.446][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.448][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.450][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:47.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:47.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:47.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:47.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.473][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:47.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:47.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.482][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:47.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:47.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.490][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:47.492][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:47.494][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.496][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.498][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:47.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:47.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.514][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.522][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.531][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.537][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.539][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.541][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.543][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.545][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:47.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:47.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:47.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:47.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:47.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.585][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:47.587][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:47.589][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.591][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:47.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:47.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.611][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:47.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:47.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.619][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:47.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:47.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.627][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:47.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:47.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.635][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:47.637][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:47.639][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.641][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.643][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:47.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:47.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.661][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.677][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.682][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.683][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.685][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.687][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.689][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.701][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.708][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.717][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.725][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.728][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.730][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.739][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.741][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.757][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:47.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:47.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.764][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:47.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:47.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.771][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:47.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:47.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.776][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:47.777][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:47.778][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.779][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.781][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:47.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:47.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.795][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:47.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:47.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.802][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:47.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:47.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.809][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:47.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:47.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.814][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:47.815][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:47.816][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.817][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:47.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:47.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.830][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:47.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:47.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:47.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:47.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:47.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:47.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.853][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:47.855][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:47.857][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.859][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.861][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:47.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:47.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.879][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.887][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.896][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.904][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.907][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.909][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.910][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.912][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.927][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:47.928][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:47.930][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.931][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.937][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.939][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:47.940][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.942][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.948][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.950][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:47.952][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.954][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.959][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.962][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:47.964][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.966][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.972][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.974][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:47.976][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.978][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.984][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.986][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:47.987][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.988][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:47.992][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.993][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:47.995][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:47.996][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.001][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:48.004][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:48.006][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.008][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.014][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:48.017][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:48.019][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.021][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.027][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:48.030][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:48.032][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.034][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.041][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:48.043][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:48.045][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.047][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.054][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.056][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.058][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.060][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.066][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.069][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.071][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.073][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.079][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:48.081][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:48.083][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.085][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.091][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:48.093][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:48.095][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.096][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.102][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:48.104][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:48.105][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.107][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.114][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:48.116][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:48.125][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.127][ef$get] fields variable is a list.
biodb.INFO [2022-01-13 10:39:48.134][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:48.135][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2022-01-13 10:39:48.137][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:48.139][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:39:48.167][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2022-01-13 10:39:48.181][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-13 10:39:48.185][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:48.187][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-13 10:39:48.189][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2022-01-13 10:39:48.192][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 10:39:48.195][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2022-01-13 10:39:48.197][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:39:48.263][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-13 10:39:48.266][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-13 10:39:48.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:48.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:48.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:48.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:48.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:48.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:48.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:39:48.288][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:48.291][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:48.293][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.294][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:48.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:48.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.312][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:48.314][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:48.315][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.317][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.320][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:48.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:48.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.333][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:48.335][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:48.337][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.339][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.341][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:48.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:48.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.357][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:48.360][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:48.361][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.363][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:48.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:48.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.382][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:48.384][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:48.386][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.388][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:48.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:48.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.404][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.406][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.408][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.410][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.413][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.426][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:48.429][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:48.431][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.432][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.435][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:48.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:48.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.448][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:48.450][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:48.451][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.453][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.455][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:48.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:48.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.471][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:48.473][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:48.475][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.477][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.480][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:48.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:48.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.496][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:48.499][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:48.501][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.510][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:48.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:48.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.526][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:48.528][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:48.530][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.531][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.534][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:48.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:48.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.546][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.548][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.550][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.552][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.567][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:48.569][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:48.572][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.573][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:48.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:48.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.593][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:48.595][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:48.597][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.599][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:48.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:48.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.618][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:48.620][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:48.622][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.624][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.627][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:48.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:48.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.639][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:48.641][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:48.643][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.645][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.648][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:48.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:48.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.665][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-01-13 10:39:48.667][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:48.670][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.672][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.674][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-01-13 10:39:48.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:48.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:48.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:48.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:48.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:48.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:48.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:48.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.714][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:48.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:48.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.721][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:48.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:48.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.729][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:48.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:48.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.738][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:48.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:48.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.746][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:48.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:48.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.754][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:48.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:48.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:48.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:48.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:48.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:48.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:48.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:48.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:48.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:48.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:48.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:48.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:48.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:48.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.796][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:48.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:48.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.802][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:48.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:48.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.808][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:48.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:48.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.815][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:48.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:48.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.824][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:48.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:48.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.832][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:48.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:48.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.837][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:48.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:48.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.842][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:48.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:48.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.847][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:48.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:48.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.854][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:48.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:48.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.862][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:48.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:48.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.877][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:48.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:48.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.886][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:48.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:48.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.893][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:48.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:48.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:48.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:48.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.911][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:48.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:48.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:48.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:48.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.928][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:48.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:48.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:48.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.962][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.970][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.980][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:48.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:48.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:48.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:48.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:48.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:48.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:48.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:48.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:49.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.005][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.010][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.024][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:49.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:49.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.033][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:49.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:49.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.038][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:49.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:49.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.045][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:49.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:49.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.054][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:49.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:49.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.062][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:49.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:49.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.069][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-13 10:39:49.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:49.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.078][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:49.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:49.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:49.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:49.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:49.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:49.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.102][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-13 10:39:49.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:49.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.120][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.129][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.169][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:49.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:49.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.177][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:49.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:49.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:49.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:49.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.194][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:49.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:49.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:49.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:49.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:49.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:49.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:49.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:49.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:49.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:49.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:49.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:49.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:49.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:49.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:49.256][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2022-01-13 10:39:49.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2022-01-13 10:39:49.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2022-01-13 10:39:49.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2022-01-13 10:39:49.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2022-01-13 10:39:49.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2022-01-13 10:39:49.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2022-01-13 10:39:49.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 10:39:49.285][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:49.286][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2022-01-13 10:39:49.287][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:49.288][biodb::testThat] 
biodb.TRACE[2022-01-13 10:39:49.291][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.293][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.295][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.297][ef$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:49.299][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2022-01-13 10:39:49.345][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:49.369][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2022-01-13 10:39:49.379][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-01-13 10:39:49.381][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-13 10:39:49.383][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-13 10:39:49.386][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:49.389][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:49.392][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-13 10:39:49.395][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:49.397][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-13 10:39:49.408][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-13 10:39:49.411][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-13 10:39:49.413][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-13 10:39:49.415][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-13 10:39:49.417][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-13 10:39:49.419][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-13 10:39:49.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.430][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.438][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.445][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:49.453][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-13 10:39:49.455][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-13 10:39:49.457][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2022-01-13 10:39:49.471][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:49.473][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:49.476][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.478][ef$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:49.480][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2022-01-13 10:39:49.494][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:49.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:49.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.503][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:49.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:49.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.511][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:49.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:49.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:49.523][function(conn, opt)] With value "1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.".
biodb.DEBUG[2022-01-13 10:39:49.629][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-01-13 10:39:49.631][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2022-01-13 10:39:49.632][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2022-01-13 10:39:49.664][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:49.667][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:49.669][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-13 10:39:49.672][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:49.673][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-13 10:39:49.704][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-13 10:39:49.706][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-13 10:39:49.707][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-13 10:39:49.709][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-13 10:39:49.711][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-13 10:39:49.713][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-13 10:39:49.716][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:49.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:49.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.724][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:49.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:49.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.733][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:49.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:49.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.742][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:49.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:49.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:49.751][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-13 10:39:49.753][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-13 10:39:49.755][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2022-01-13 10:39:49.771][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:49.774][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2022-01-13 10:39:49.776][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:49.778][biodb::testThat] 
biodb.TRACE[2022-01-13 10:39:49.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.799][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.805][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:49.819][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-01-13 10:39:49.820][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-13 10:39:49.821][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-13 10:39:49.823][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:49.825][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:49.827][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-13 10:39:49.830][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:49.832][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-13 10:39:49.837][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-13 10:39:49.838][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-13 10:39:49.839][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-13 10:39:49.840][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-13 10:39:49.842][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-13 10:39:49.843][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-13 10:39:49.845][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.850][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.859][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:49.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:49.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:49.867][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-13 10:39:49.869][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2022-01-13 10:39:49.884][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:49.886][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2022-01-13 10:39:49.888][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:49.890][biodb::testThat] 
biodb.TRACE[2022-01-13 10:39:49.938][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:39:49.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:39:49.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.945][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:39:49.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:39:49.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:39:49.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:39:49.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:49.958][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:39:49.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:39:49.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:49.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:50.059][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:39:50.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:39:50.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:50.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:50.067][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-13 10:39:50.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-13 10:39:50.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:50.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:50.074][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-13 10:39:50.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-13 10:39:50.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:50.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:50.082][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-13 10:39:50.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-13 10:39:50.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:50.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 10:39:50.095][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:50.097][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2022-01-13 10:39:50.099][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:50.101][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:50.110][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:50.112][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2022-01-13 10:39:50.114][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:50.116][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:50.125][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:50.127][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2022-01-13 10:39:50.129][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:50.131][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:39:50.137][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2022-01-13 10:39:51.154][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2022-01-13 10:39:51.238][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:51.240][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2022-01-13 10:39:51.242][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:51.244][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:39:51.534][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.INFO [2022-01-13 10:39:51.611][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:51.613][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2022-01-13 10:39:51.615][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:51.617][biodb::testThat] 
biodb.TRACE[2022-01-13 10:39:51.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:51.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:51.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:51.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:51.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.646][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:51.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:51.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:51.693][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-01-13 10:39:51.694][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-13 10:39:51.696][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-13 10:39:51.699][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:51.703][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:51.705][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-13 10:39:51.708][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:51.710][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-13 10:39:51.730][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-13 10:39:51.732][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-13 10:39:51.734][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-13 10:39:51.736][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-13 10:39:51.738][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-13 10:39:51.739][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-13 10:39:51.743][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:51.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:51.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.749][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:51.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:51.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:51.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:51.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:51.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:51.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:51.770][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-13 10:39:51.771][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-13 10:39:51.780][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-01-13 10:39:51.782][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-13 10:39:51.784][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-13 10:39:51.786][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:51.788][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:51.791][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-13 10:39:51.794][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:51.795][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-13 10:39:51.801][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-13 10:39:51.803][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-13 10:39:51.806][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-13 10:39:51.808][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-13 10:39:51.810][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-13 10:39:51.812][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-13 10:39:51.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:51.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:51.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:51.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:51.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.826][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:51.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:51.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.833][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:51.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:51.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:51.855][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-13 10:39:51.858][private$doSearchForEntries] COUNT IDS = 1
biodb.TRACE[2022-01-13 10:39:51.872][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:51.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:51.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.880][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:51.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:51.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.888][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:51.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:51.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.895][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:51.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:51.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.904][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:51.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:51.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.WARN [2022-01-13 10:39:51.923][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-01-13 10:39:51.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:39:51.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:39:51.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:51.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:51.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:51.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:51.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:51.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:51.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:51.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:51.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:51.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:51.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:51.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:51.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.WARN [2022-01-13 10:39:51.996][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-01-13 10:39:52.003][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-13 10:39:52.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-13 10:39:52.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 10:39:52.019][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:52.021][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2022-01-13 10:39:52.023][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:52.025][biodb::testThat] 
biodb.TRACE[2022-01-13 10:39:52.031][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.039][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.047][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.055][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:52.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:52.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:52.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:52.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:52.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:52.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:52.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-01-13 10:39:52.142][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-01-13 10:39:52.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:39:52.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:39:52.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:52.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:52.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:52.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:52.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:52.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:52.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:52.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-01-13 10:39:52.379][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-01-13 10:39:52.435][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-13 10:39:52.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-13 10:39:52.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 10:39:52.441][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:52.442][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2022-01-13 10:39:52.443][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:52.444][biodb::testThat] 
biodb.TRACE[2022-01-13 10:39:52.449][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.456][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.463][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.471][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:52.483][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:52.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:52.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:52.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:52.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:52.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:52.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-01-13 10:39:52.551][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-01-13 10:39:52.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:39:52.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:39:52.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:52.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:52.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:52.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:52.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:52.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:52.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:52.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-01-13 10:39:52.669][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-01-13 10:39:52.677][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-13 10:39:52.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-13 10:39:52.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 10:39:52.687][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:52.689][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2022-01-13 10:39:52.690][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:52.691][biodb::testThat] 
biodb.TRACE[2022-01-13 10:39:52.695][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.699][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.704][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.709][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:52.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:52.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:52.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:52.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:52.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:52.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:52.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:52.725][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.WARN [2022-01-13 10:39:52.757][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-01-13 10:39:52.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-13 10:39:52.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-13 10:39:52.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:52.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:52.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:52.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:52.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:52.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:52.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:52.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:52.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:52.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-01-13 10:39:52.865][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-01-13 10:39:52.872][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-13 10:39:52.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-13 10:39:52.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:52.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 10:39:52.880][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:52.882][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2022-01-13 10:39:52.883][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:52.885][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:39:52.888][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2022-01-13 10:39:52.983][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-13 10:39:52.986][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:52.989][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-13 10:39:53.022][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2022-01-13 10:39:53.024][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 10:39:53.025][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 10:39:53.026][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:39:53.028][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:53.040][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-13 10:39:53.042][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-13 10:39:53.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:53.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:53.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:53.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:53.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:53.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:39:53.058][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:53.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:53.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.064][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:53.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:53.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:53.105][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-01-13 10:39:53.106][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.INFO [2022-01-13 10:39:53.128][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:53.130][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2022-01-13 10:39:53.132][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:53.133][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:39:53.143][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2022-01-13 10:39:53.145][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2022-01-13 10:39:53.146][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-13 10:39:53.148][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:53.150][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-13 10:39:53.152][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2022-01-13 10:39:53.155][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-13 10:39:53.157][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-13 10:39:53.160][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:39:53.162][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:53.182][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-13 10:39:53.184][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-13 10:39:53.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:53.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:53.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:53.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:53.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:53.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.200][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.TRACE[2022-01-13 10:39:53.203][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:53.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:53.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.211][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:53.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:53.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:53.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:53.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:53.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:53.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:53.266][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-01-13 10:39:53.268][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.DEBUG[2022-01-13 10:39:53.270][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2022-01-13 10:39:53.282][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:53.285][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2022-01-13 10:39:53.287][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:53.289][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:53.326][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:53.328][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2022-01-13 10:39:53.330][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:53.332][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:39:53.336][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:53.339][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:53.350][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-13 10:39:53.353][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:53.355][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-13 10:39:53.365][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-13 10:39:53.368][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-13 10:39:53.370][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-13 10:39:53.372][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2022-01-13 10:39:53.380][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:53.382][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2022-01-13 10:39:53.384][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:53.386][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:39:53.390][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:53.393][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:53.396][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-13 10:39:53.398][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:53.399][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-13 10:39:53.406][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-13 10:39:53.407][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-13 10:39:53.408][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-13 10:39:53.410][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2022-01-13 10:39:53.416][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:53.418][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2022-01-13 10:39:53.420][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:53.422][biodb::testThat] 
biodb.ERROR[2022-01-13 10:39:53.444][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2022-01-13 10:39:53.466][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2022-01-13 10:39:53.480][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-13 10:39:53.483][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-01-13 10:39:53.498][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-01-13 10:39:53.500][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-13 10:39:53.502][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:53.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:53.505][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:53.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:53.509][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 10:39:53.519][biodb::testContext] 
biodb.INFO [2022-01-13 10:39:53.521][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:39:53.523][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2022-01-13 10:39:53.525][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:39:53.527][biodb::testContext] 
biodb.INFO [2022-01-13 10:39:53.542][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:39:53.545][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 10:39:53.553][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:39:53.555][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 10:39:53.557][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 10:39:53.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.565][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 10:39:53.567][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 10:39:53.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.574][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 10:39:53.576][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 10:39:53.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.584][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 10:39:53.585][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 10:39:53.587][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 10:39:53.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.594][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 10:39:53.596][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 10:39:53.598][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 10:39:53.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.604][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 10:39:53.606][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 10:39:53.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.613][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 10:39:53.615][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 10:39:53.617][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 10:39:53.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.624][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 10:39:53.626][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 10:39:53.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.634][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 10:39:53.636][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 10:39:53.638][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 10:39:53.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.645][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:39:53.647][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 10:39:53.649][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 10:39:53.651][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 10:39:53.653][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 10:39:53.656][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 10:39:53.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.662][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 10:39:53.664][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 10:39:53.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.671][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 10:39:53.673][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 10:39:53.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.688][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 10:39:53.690][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 10:39:53.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.696][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 10:39:53.697][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 10:39:53.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.703][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 10:39:53.705][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 10:39:53.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.712][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:39:53.714][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 10:39:53.725][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-01-13 10:39:53.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.731][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 10:39:53.733][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 10:39:53.735][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 10:39:53.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.743][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:39:53.746][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.748][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-13 10:39:53.750][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.752][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:53.754][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.756][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.758][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.760][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.762][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:39:53.764][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:53.766][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.768][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 10:39:53.770][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:53.772][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.774][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.776][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:39:53.776][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:39:53.776][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:39:53.776][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:39:53.776][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:39:53.778][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:53.780][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:53.782][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:53.784][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:53.786][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:53.787][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:53.789][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.791][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.793][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:53.794][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:53.795][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.796][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.798][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 10:39:53.800][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.801][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:39:53.802][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.803][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:53.804][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.806][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.807][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.808][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.809][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:39:53.810][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:53.811][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.812][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 10:39:53.813][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:53.815][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.816][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.817][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:39:53.817][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:39:53.817][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:39:53.817][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:39:53.817][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:39:53.818][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:53.819][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:53.820][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:53.822][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:53.824][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:53.826][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:53.828][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.830][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.832][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:53.834][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:53.836][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.838][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.840][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:39:53.844][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.846][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-13 10:39:53.848][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.850][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:53.853][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.855][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.857][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.858][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.859][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:39:53.860][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:53.862][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.863][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 10:39:53.864][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:53.865][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.866][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.868][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.869][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:53.870][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:53.871][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:53.872][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:53.873][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:53.874][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:53.876][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.878][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.881][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:53.883][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:53.885][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.887][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.889][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 10:39:53.893][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.895][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:39:53.897][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.899][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:53.901][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.903][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.905][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.906][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.908][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:39:53.909][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:53.910][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.911][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 10:39:53.912][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:53.914][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.915][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:53.916][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.917][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:53.918][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:53.919][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:53.920][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:53.922][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:53.923][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:53.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:53.927][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.928][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:53.930][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:53.932][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:53.934][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:53.937][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:39:53.939][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:53.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:53.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:53.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:53.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:53.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:53.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:53.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:53.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:53.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:53.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:53.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:53.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:53.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:53.995][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[2022-01-13 10:39:53.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:53.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.003][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[2022-01-13 10:39:54.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.017][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[2022-01-13 10:39:54.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.085][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 10:39:54.088][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 10:39:54.091][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 10:39:54.094][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 10:39:54.097][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 10:39:54.099][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:39:54.100][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 10:39:54.102][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 10:39:54.104][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 10:39:54.105][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:39:54.108][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:39:54.110][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 10:39:54.111][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 10:39:54.113][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 10:39:54.114][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 10:39:54.116][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:39:54.118][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 10:39:54.119][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 10:39:54.122][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 10:39:54.123][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 10:39:54.125][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 10:39:54.128][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 10:39:54.131][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 10:39:54.133][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 10:39:54.135][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 10:39:54.138][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 10:39:54.141][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 10:39:54.144][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 10:39:54.147][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 10:39:54.150][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 10:39:54.152][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 10:39:54.154][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 10:39:54.156][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 10:39:54.157][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 10:39:54.160][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 10:39:54.163][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 10:39:54.166][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 10:39:54.168][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 10:39:54.171][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 10:39:54.174][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 10:39:54.177][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 10:39:54.180][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 10:39:54.183][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 10:39:54.185][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 10:39:54.188][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 10:39:54.191][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 10:39:54.194][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 10:39:54.197][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 10:39:54.200][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 10:39:54.203][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 10:39:54.206][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 10:39:54.209][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 10:39:54.212][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 10:39:54.216][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 10:39:54.219][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 10:39:54.222][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 10:39:54.226][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 10:39:54.229][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 10:39:54.232][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 10:39:54.235][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 10:39:54.238][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 10:39:54.241][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 10:39:54.243][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 10:39:54.245][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 10:39:54.247][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 10:39:54.250][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 10:39:54.253][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 10:39:54.256][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 10:39:54.259][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 10:39:54.271][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 10:39:54.274][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 10:39:54.277][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 10:39:54.280][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 10:39:54.283][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 10:39:54.287][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 10:39:54.290][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 10:39:54.293][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 10:39:54.296][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 10:39:54.299][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 10:39:54.302][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 10:39:54.305][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 10:39:54.309][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 10:39:54.312][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 10:39:54.315][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 10:39:54.318][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:39:54.320][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:39:54.322][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.325][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.350][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[2022-01-13 10:39:54.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.406][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.DEBUG[2022-01-13 10:39:54.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.427][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[2022-01-13 10:39:54.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.439][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[2022-01-13 10:39:54.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.474][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[2022-01-13 10:39:54.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.497][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[2022-01-13 10:39:54.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:54.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:54.525][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-01-13 10:39:54.528][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:54.532][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:54.534][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-13 10:39:54.536][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:54.537][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:54.539][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:54.540][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-01-13 10:39:54.542][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:54.543][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:54.545][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-01-13 10:39:54.547][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:54.548][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:54.550][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-01-13 10:39:54.552][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-01-13 10:39:54.554][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-01-13 10:39:54.557][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:54.559][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:39:54.559][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-01-13 10:39:54.561][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-01-13 10:39:54.562][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:54.564][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:54.565][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:54.566][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:54.568][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:54.569][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:54.570][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-13 10:39:54.570][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-01-13 10:39:54.579][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:54.581][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:54.583][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:54.585][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:54.587][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:39:54.590][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:39:54.593][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:39:54.596][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:39:54.603][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:54.605][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-01-13 10:39:54.608][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:54.611][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-13 10:39:54.613][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:54.615][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:54.618][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-01-13 10:39:54.620][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-01-13 10:39:54.623][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-13 10:39:54.623][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-01-13 10:39:54.625][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:54.626][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:54.628][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-01-13 10:39:54.630][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-01-13 10:39:54.632][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:54.635][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-13 10:39:54.637][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:54.640][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:54.642][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-13 10:39:54.645][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:54.647][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-01-13 10:39:54.650][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:54.652][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2022-01-13 10:39:54.654][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:54.655][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:39:54.662][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:54.665][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:54.667][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-13 10:39:54.670][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:54.672][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-13 10:39:54.682][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-13 10:39:54.683][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-13 10:39:54.685][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-13 10:39:54.686][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-13 10:39:54.689][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2022-01-13 10:39:54.693][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:54.695][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2022-01-13 10:39:54.697][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:54.699][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:39:54.701][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2022-01-13 10:39:54.702][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-13 10:39:54.704][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:54.706][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-13 10:39:54.708][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2022-01-13 10:39:54.710][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 10:39:54.712][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2022-01-13 10:39:54.713][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:39:54.726][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-13 10:39:54.728][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-13 10:39:54.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:54.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:54.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:54.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:54.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:54.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:54.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:39:54.745][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:54.746][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:54.748][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.750][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:54.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:54.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.796][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:54.798][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:54.800][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.802][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.804][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:54.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:54.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.819][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:54.822][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:54.824][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.826][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.827][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:54.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:54.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:54.845][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:54.847][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.848][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:54.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:54.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.862][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:54.864][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:54.865][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.866][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:54.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:54.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.885][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:54.887][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:54.888][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.889][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.891][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:54.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:54.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.906][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:54.909][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:54.911][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.913][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.915][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:54.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:54.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.932][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:54.934][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:54.935][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.937][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.939][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:54.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:54.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.955][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:54.957][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:54.959][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.961][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.964][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:54.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:54.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.979][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:54.981][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:54.983][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.985][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:54.987][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:54.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:54.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:54.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.003][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:55.006][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:55.008][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.010][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:55.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:55.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.028][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.030][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.032][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.034][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.052][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:55.055][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:55.056][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.058][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:55.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:55.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.076][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:55.078][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:55.080][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.082][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:55.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:55.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.100][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:55.103][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:55.105][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.106][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.109][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:55.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:55.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.124][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:55.126][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:55.128][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.130][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.132][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:55.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:55.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.148][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-01-13 10:39:55.151][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:55.153][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.154][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.156][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-01-13 10:39:55.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:55.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.195][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:55.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:55.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.206][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:55.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:55.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.212][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:55.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:55.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.220][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:55.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:55.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.229][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:55.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:55.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.237][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:55.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:55.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:55.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:55.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:55.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:55.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:55.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:55.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:55.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:55.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:55.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:55.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:55.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:55.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.284][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:55.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:55.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.292][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:55.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:55.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.300][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:55.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:55.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.308][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:55.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:55.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.316][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:55.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:55.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.324][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:55.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:55.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.332][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:55.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:55.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.340][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:55.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:55.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.348][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:55.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:55.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.354][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:55.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:55.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.363][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:55.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:55.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.371][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:55.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:55.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.380][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:55.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:55.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.387][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:55.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:55.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.395][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:55.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:55.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:55.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:55.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:55.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:55.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:55.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:55.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.455][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:55.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:55.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.465][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:55.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:55.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.473][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:55.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:55.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:55.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:55.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:55.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:55.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:55.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:55.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.506][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:55.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:55.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.513][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:55.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:55.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.552][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:55.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:55.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.561][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:55.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:55.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.568][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:55.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:55.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.574][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:55.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:55.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.579][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:55.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:55.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.588][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:55.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:55.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.593][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:55.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:55.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.598][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-13 10:39:55.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.603][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.619][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-13 10:39:55.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:55.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:55.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:55.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.641][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:55.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:55.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:55.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:55.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.655][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:55.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:55.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.663][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:55.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:55.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.679][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:55.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:55.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.685][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:55.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:55.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.701][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:55.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:55.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:55.760][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2022-01-13 10:39:55.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:55.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:55.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:55.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:55.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-13 10:39:55.792][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-13 10:39:55.794][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-01-13 10:39:55.797][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-01-13 10:39:55.799][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-13 10:39:55.800][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:55.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:55.803][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:55.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:55.805][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-13 10:39:55.816][biodb::testContext] 
biodb.INFO [2022-01-13 10:39:55.818][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:39:55.820][biodb::testContext] Test context - Test search of entries
biodb.INFO [2022-01-13 10:39:55.822][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-13 10:39:55.825][biodb::testContext] 
biodb.INFO [2022-01-13 10:39:55.840][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:39:55.843][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-13 10:39:55.851][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:39:55.853][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-13 10:39:55.855][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-13 10:39:55.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.870][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-13 10:39:55.872][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-13 10:39:55.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.879][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-13 10:39:55.881][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-13 10:39:55.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.888][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-13 10:39:55.890][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-13 10:39:55.892][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-13 10:39:55.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.896][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-13 10:39:55.898][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-13 10:39:55.900][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-13 10:39:55.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.907][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-13 10:39:55.909][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-13 10:39:55.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.915][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-13 10:39:55.916][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-13 10:39:55.918][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-13 10:39:55.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.924][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-13 10:39:55.926][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-13 10:39:55.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.933][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-13 10:39:55.934][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-13 10:39:55.936][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-13 10:39:55.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.942][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:39:55.944][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-13 10:39:55.945][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-13 10:39:55.947][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-13 10:39:55.949][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-13 10:39:55.951][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-13 10:39:55.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.957][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-13 10:39:55.958][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-13 10:39:55.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.963][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.DEBUG[2022-01-13 10:39:55.964][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-13 10:39:55.966][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-13 10:39:55.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.973][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-13 10:39:55.975][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-13 10:39:55.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.982][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-13 10:39:55.984][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-13 10:39:55.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:55.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:55.992][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-13 10:39:55.994][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-13 10:39:55.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:55.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.002][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-13 10:39:56.004][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-13 10:39:56.016][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-01-13 10:39:56.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.020][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-13 10:39:56.023][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-13 10:39:56.025][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-13 10:39:56.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.033][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-13 10:39:56.036][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.038][self$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[2022-01-13 10:39:56.040][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.042][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:56.044][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.046][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.048][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.050][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.052][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:39:56.053][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:56.055][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.056][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-13 10:39:56.057][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:56.059][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.060][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.062][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:39:56.062][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:39:56.062][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:39:56.062][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:39:56.062][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:39:56.064][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:56.066][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:56.067][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:56.069][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:56.071][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:56.073][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:56.075][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.076][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.078][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:56.080][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:56.081][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.082][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.085][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-13 10:39:56.088][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.090][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:39:56.092][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.094][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:56.096][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.098][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.099][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.100][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.101][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:39:56.104][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:56.106][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.108][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-13 10:39:56.110][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:56.112][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.114][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.116][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:39:56.116][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-13 10:39:56.116][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-13 10:39:56.116][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-13 10:39:56.116][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-13 10:39:56.118][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:56.120][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:56.122][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:56.124][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:56.126][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:56.128][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:56.130][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.132][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.134][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:56.136][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:56.138][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.140][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.143][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-13 10:39:56.147][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.149][self$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[2022-01-13 10:39:56.151][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.152][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:56.153][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.155][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.157][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.159][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.161][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-13 10:39:56.163][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:56.164][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.165][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-13 10:39:56.167][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:56.176][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.178][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.181][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.183][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:56.185][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:56.186][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:56.188][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:56.189][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:56.191][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:56.192][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.194][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.196][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:56.197][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:56.199][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.201][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.203][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-13 10:39:56.207][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.209][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-13 10:39:56.211][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.213][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:56.215][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.217][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.219][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.221][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.223][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-13 10:39:56.225][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:56.226][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.227][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-13 10:39:56.229][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:56.231][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.233][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.235][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.236][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-13 10:39:56.238][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:56.240][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:56.242][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:56.243][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:56.245][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:56.247][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.249][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.250][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:56.252][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:56.254][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.255][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.257][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:39:56.259][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.269][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[2022-01-13 10:39:56.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.286][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[2022-01-13 10:39:56.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.329][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[2022-01-13 10:39:56.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.351][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[2022-01-13 10:39:56.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.393][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[2022-01-13 10:39:56.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.402][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-13 10:39:56.405][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-13 10:39:56.408][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-13 10:39:56.410][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-13 10:39:56.414][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-13 10:39:56.417][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:39:56.420][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-13 10:39:56.423][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-13 10:39:56.426][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-13 10:39:56.429][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:39:56.432][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:39:56.435][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-13 10:39:56.439][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-13 10:39:56.442][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-13 10:39:56.445][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-13 10:39:56.448][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:39:56.451][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-13 10:39:56.454][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-13 10:39:56.457][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-13 10:39:56.460][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-13 10:39:56.463][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-13 10:39:56.466][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-13 10:39:56.469][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-13 10:39:56.472][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-13 10:39:56.475][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-13 10:39:56.478][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-13 10:39:56.481][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-13 10:39:56.489][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-13 10:39:56.492][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-13 10:39:56.495][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-13 10:39:56.498][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-13 10:39:56.500][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-13 10:39:56.502][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-13 10:39:56.503][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-13 10:39:56.505][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-13 10:39:56.508][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-13 10:39:56.510][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-13 10:39:56.511][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-13 10:39:56.513][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-13 10:39:56.515][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-13 10:39:56.517][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-13 10:39:56.520][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-13 10:39:56.523][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-13 10:39:56.526][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-13 10:39:56.529][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-13 10:39:56.532][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-13 10:39:56.534][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-13 10:39:56.537][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-13 10:39:56.539][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-13 10:39:56.541][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-13 10:39:56.544][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-13 10:39:56.546][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-13 10:39:56.549][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-13 10:39:56.551][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-13 10:39:56.553][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-13 10:39:56.556][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-13 10:39:56.560][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-13 10:39:56.563][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-13 10:39:56.565][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-13 10:39:56.568][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-13 10:39:56.571][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-13 10:39:56.574][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-13 10:39:56.577][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-13 10:39:56.580][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-13 10:39:56.583][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-13 10:39:56.585][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-13 10:39:56.588][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-13 10:39:56.591][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-13 10:39:56.593][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-13 10:39:56.595][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-13 10:39:56.597][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-13 10:39:56.598][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-13 10:39:56.600][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-13 10:39:56.601][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-13 10:39:56.603][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-13 10:39:56.605][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-13 10:39:56.606][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-13 10:39:56.608][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-13 10:39:56.610][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-13 10:39:56.612][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-13 10:39:56.615][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-13 10:39:56.617][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-13 10:39:56.620][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-13 10:39:56.622][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-13 10:39:56.624][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-13 10:39:56.625][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-13 10:39:56.626][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.628][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.674][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[2022-01-13 10:39:56.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.732][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[2022-01-13 10:39:56.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.762][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[2022-01-13 10:39:56.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:56.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.794][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[2022-01-13 10:39:56.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.803][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[2022-01-13 10:39:56.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-13 10:39:56.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:56.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:56.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:56.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:56.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:56.815][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[2022-01-13 10:39:56.818][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-01-13 10:39:56.821][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:56.824][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.826][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.828][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.829][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-13 10:39:56.831][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.832][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-01-13 10:39:56.834][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.836][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.839][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-01-13 10:39:56.841][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-13 10:39:56.843][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.846][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-01-13 10:39:56.848][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-01-13 10:39:56.850][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-01-13 10:39:56.853][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-13 10:39:56.854][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-13 10:39:56.854][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-01-13 10:39:56.856][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-01-13 10:39:56.858][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:56.859][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:56.861][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-13 10:39:56.863][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-13 10:39:56.865][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-13 10:39:56.867][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-13 10:39:56.869][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-13 10:39:56.869][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-01-13 10:39:56.871][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:56.872][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:56.874][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-13 10:39:56.876][self$setPropertyValue] 
biodb.DEBUG[2022-01-13 10:39:56.879][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-13 10:39:56.883][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-13 10:39:56.886][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-13 10:39:56.889][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-13 10:39:56.896][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:56.898][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-01-13 10:39:56.900][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:56.903][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-13 10:39:56.905][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:56.907][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:56.910][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-01-13 10:39:56.912][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-01-13 10:39:56.914][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-13 10:39:56.914][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-01-13 10:39:56.916][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-13 10:39:56.918][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-13 10:39:56.920][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-01-13 10:39:56.922][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-01-13 10:39:56.924][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-13 10:39:56.927][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-13 10:39:56.929][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:56.931][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:56.934][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.1/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-13 10:39:56.936][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-13 10:39:56.938][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-01-13 10:39:56.941][biodb::testThat] 
biodb.INFO [2022-01-13 10:39:56.943][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2022-01-13 10:39:56.945][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-13 10:39:56.947][biodb::testThat] 
biodb.DEBUG[2022-01-13 10:39:56.958][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-01-13 10:39:56.960][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2022-01-13 10:39:56.962][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2022-01-13 10:39:56.967][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:56.970][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:56.973][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-13 10:39:56.976][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:56.979][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-13 10:39:56.989][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-13 10:39:56.991][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-13 10:39:56.992][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-13 10:39:56.993][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-13 10:39:56.994][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-13 10:39:56.995][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2022-01-13 10:39:56.997][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2022-01-13 10:39:56.999][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-13 10:39:57.000][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:57.002][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-13 10:39:57.004][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2022-01-13 10:39:57.006][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 10:39:57.008][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2022-01-13 10:39:57.010][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:39:57.022][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-13 10:39:57.023][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-13 10:39:57.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:57.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:57.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:57.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:57.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:57.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:57.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:39:57.037][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.038][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.039][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.041][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.061][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:57.062][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:57.063][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.064][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.066][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:57.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:57.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.078][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:57.080][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:57.082][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.084][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.086][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:57.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:57.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.103][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:57.104][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:57.105][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.107][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:57.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:57.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.118][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:57.120][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:57.121][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.122][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:57.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:57.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.134][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:57.136][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:57.137][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.138][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.140][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:57.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:57.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.155][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:57.157][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:57.159][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.161][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.163][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:57.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:57.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.179][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:57.181][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:57.183][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.184][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.187][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:57.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:57.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.202][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:57.204][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:57.205][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.206][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.208][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:57.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:57.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.218][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:57.219][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:57.220][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.222][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.224][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:57.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:57.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.240][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:57.242][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:57.244][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.246][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:57.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:57.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.264][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.266][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.268][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.270][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.273][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.289][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:57.291][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:57.293][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.295][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:57.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:57.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.306][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:57.307][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:57.308][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.309][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.311][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:57.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:57.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.335][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:57.337][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:57.339][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.341][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.344][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:57.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:57.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.359][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:57.361][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:57.363][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.365][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.368][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:57.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:57.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.383][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-01-13 10:39:57.385][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:57.387][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.389][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.392][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-01-13 10:39:57.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:57.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.429][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:57.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:57.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.438][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:57.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:57.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.447][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:57.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:57.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.456][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:57.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:57.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.465][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:57.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:57.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.473][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:57.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:57.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:57.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:57.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:57.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:57.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:57.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:57.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:57.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:57.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:57.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:57.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:57.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:57.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.530][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:57.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:57.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.535][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:57.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:57.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.539][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:57.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:57.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.544][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:57.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:57.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.549][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:57.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:57.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.553][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:57.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:57.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.560][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:57.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:57.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.567][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:57.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:57.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.572][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:57.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:57.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.576][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:57.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:57.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.582][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:57.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:57.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.589][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:57.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:57.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.597][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:57.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:57.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.606][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:57.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:57.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.614][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:57.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:57.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:57.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:57.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:57.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:57.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:57.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:57.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.645][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.667][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:57.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:57.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.675][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:57.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:57.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.683][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:57.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:57.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:57.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:57.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:57.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:57.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:57.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:57.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.714][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:57.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:57.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:57.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:57.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:57.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:57.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.735][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:57.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:57.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.741][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:57.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:57.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.746][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:57.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:57.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.753][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:57.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:57.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.761][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:57.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:57.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.769][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:57.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:57.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.777][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-13 10:39:57.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.805][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-13 10:39:57.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:57.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:57.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:57.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.826][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:57.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:57.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:57.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:57.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:57.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:57.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.848][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:57.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:57.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.863][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:57.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:57.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.870][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:57.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:57.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.887][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:57.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:57.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:57.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:57.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:57.957][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2022-01-13 10:39:57.960][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:57.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:57.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.968][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:57.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:57.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.976][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:57.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:57.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:57.984][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:57.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:57.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:57.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:57.991][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-13 10:39:57.993][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-13 10:39:57.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:57.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:57.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:58.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:58.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:58.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:58.007][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[2022-01-13 10:39:58.009][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2022-01-13 10:39:58.011][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-13 10:39:58.015][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:58.018][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-13 10:39:58.022][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2022-01-13 10:39:58.025][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-13 10:39:58.028][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2022-01-13 10:39:58.030][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-13 10:39:58.051][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-13 10:39:58.053][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-13 10:39:58.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:58.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:58.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:58.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:58.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:58.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:58.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:39:58.066][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:58.068][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:58.070][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.072][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:58.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:58.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.087][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:58.089][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:58.091][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.092][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.095][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:58.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:58.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.111][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:58.113][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:58.115][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.117][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.120][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:58.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:58.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.135][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:58.138][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:58.139][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.141][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:58.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:58.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.160][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:58.162][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:58.164][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.166][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:58.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:58.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.185][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:58.188][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:58.189][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.191][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.194][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:58.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:58.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.209][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:58.212][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:58.214][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.215][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.218][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:58.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:58.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.234][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:58.236][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:58.238][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.240][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.242][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:58.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:58.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.267][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:58.269][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:58.271][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.273][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.275][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:58.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:58.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.290][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:58.293][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:58.295][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.296][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.299][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:58.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:58.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.314][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:58.316][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:58.318][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.320][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:58.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:58.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.335][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.337][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.339][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.341][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.343][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.357][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:58.359][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:58.360][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.362][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:58.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:58.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.379][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:58.381][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:58.383][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.385][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.387][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:58.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:58.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.402][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:58.405][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:58.407][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.408][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.410][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:58.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:58.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.425][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:58.427][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:58.428][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.430][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.432][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:58.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:58.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.446][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-01-13 10:39:58.448][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:58.450][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.452][ef$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.455][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-01-13 10:39:58.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:58.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:58.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:58.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:58.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:58.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:58.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:58.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.495][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:58.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:58.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.502][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:58.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:58.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.510][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-13 10:39:58.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-13 10:39:58.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.518][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:58.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:58.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.526][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:58.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:58.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.534][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-13 10:39:58.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-13 10:39:58.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:58.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:58.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:58.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:58.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-13 10:39:58.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-13 10:39:58.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:58.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:58.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:58.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:58.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:58.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-13 10:39:58.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.581][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:58.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:58.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.589][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:58.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:58.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.597][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:58.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-13 10:39:58.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.605][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:58.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:58.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.614][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:58.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:58.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.622][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:58.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-13 10:39:58.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.630][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:58.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:58.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.639][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:58.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:58.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.647][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:58.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-13 10:39:58.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.653][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:58.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:58.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.660][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:58.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:58.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.665][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:58.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:58.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.673][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:58.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:58.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.681][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:58.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:58.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.689][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-13 10:39:58.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-13 10:39:58.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:58.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:58.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:58.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:58.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-13 10:39:58.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-13 10:39:58.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.719][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.744][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:58.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:58.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.752][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:58.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:58.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.760][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:58.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-13 10:39:58.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:58.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:58.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:58.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:58.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:58.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-13 10:39:58.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.788][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:58.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:58.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:58.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:58.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.803][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:58.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:58.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.811][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:58.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:58.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.818][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:58.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:58.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.825][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:58.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-13 10:39:58.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.831][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:58.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:58.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.839][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:58.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:58.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.847][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-13 10:39:58.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-13 10:39:58.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.855][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-13 10:39:58.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.886][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.894][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-13 10:39:58.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-13 10:39:58.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.910][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:58.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:58.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.918][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:58.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:58.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:58.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:58.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.933][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:58.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:58.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-13 10:39:58.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-13 10:39:58.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.954][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:58.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:58.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.959][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:58.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:58.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:58.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:58.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.970][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:58.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-13 10:39:58.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:58.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:58.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:58.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:58.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:58.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:58.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:58.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:58.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:59.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:59.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:59.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:59.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-13 10:39:59.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-13 10:39:59.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:59.016][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2022-01-13 10:39:59.018][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.024][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.029][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.034][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:59.038][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-13 10:39:59.039][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2022-01-13 10:39:59.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:59.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:59.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:59.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:59.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:59.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:59.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:59.051][function(conn)] Found ids when searching for words "[1]: "and"": [2]: "HMDB0000001, HMDB0000002".
biodb.DEBUG[2022-01-13 10:39:59.078][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-01-13 10:39:59.080][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2022-01-13 10:39:59.082][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2022-01-13 10:39:59.084][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:59.086][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:59.088][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-13 10:39:59.090][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:59.091][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-13 10:39:59.101][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-13 10:39:59.103][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-13 10:39:59.105][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-13 10:39:59.107][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-13 10:39:59.109][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-13 10:39:59.111][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-13 10:39:59.113][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.121][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.130][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.138][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.155][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.163][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.171][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:59.178][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-13 10:39:59.180][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-13 10:39:59.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:59.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:59.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:59.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:59.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:59.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:59.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:39:59.193][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.199][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.204][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.209][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.213][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.218][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.226][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:59.234][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2022-01-13 10:39:59.236][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-13 10:39:59.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:59.240][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:59.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:59.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:59.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:59.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:59.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-13 10:39:59.253][function(conn)] Found ids when searching for words "[2]: "histidine, cerebrovascular"": [1]: "HMDB0000001".
biodb.DEBUG[2022-01-13 10:39:59.267][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-01-13 10:39:59.270][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2022-01-13 10:39:59.272][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2022-01-13 10:39:59.275][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:59.278][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:59.281][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-13 10:39:59.284][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-13 10:39:59.286][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-13 10:39:59.296][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-13 10:39:59.298][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-13 10:39:59.300][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-13 10:39:59.302][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-13 10:39:59.304][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-13 10:39:59.306][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-13 10:39:59.310][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.318][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.326][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.333][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.342][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.351][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.359][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:59.368][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2022-01-13 10:39:59.370][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2022-01-13 10:39:59.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:59.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:59.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:59.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:59.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:59.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:59.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-13 10:39:59.385][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.394][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.401][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.408][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.413][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.421][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-13 10:39:59.427][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-13 10:39:59.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-13 10:39:59.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-13 10:39:59.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-13 10:39:59.433][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-13 10:39:59.435][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-13 10:39:59.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-13 10:39:59.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:59.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:59.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:59.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:59.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:59.456][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[2022-01-13 10:39:59.458][function(conn)] Found ids when searching for words "[2]: "monoalkylamines, shiitakes"": [1]: "HMDB0000002".
biodb.INFO [2022-01-13 10:39:59.465][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-13 10:39:59.468][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-01-13 10:39:59.470][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-01-13 10:39:59.472][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-13 10:39:59.473][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-13 10:39:59.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-13 10:39:59.477][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-13 10:39:59.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-13 10:39:59.481][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-13 10:39:59.482][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 230 ]
> 
> proc.time()
   user  system elapsed 
 16.995   0.542  18.678 

Example timings

biodbHmdb.Rcheck/biodbHmdb-Ex.timings

nameusersystemelapsed
HmdbMetabolitesConn2.6230.5373.166
HmdbMetabolitesEntry0.4320.0120.445