Back to Multiple platform build/check report for BioC 3.15
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2022-10-19 13:22:37 -0400 (Wed, 19 Oct 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.5 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4386
palomino3Windows Server 2022 Datacenterx644.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" 4138
merida1macOS 10.14.6 Mojavex86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4205
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 merida1


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? 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 179/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbHmdb 1.2.0  (landing page)
Pierrick Roger
Snapshot Date: 2022-10-18 13:55:19 -0400 (Tue, 18 Oct 2022)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: RELEASE_3_15
git_last_commit: 633a5f0
git_last_commit_date: 2022-09-23 13:17:22 -0400 (Fri, 23 Sep 2022)
nebbiolo1Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: biodbHmdb
Version: 1.2.0
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_1.2.0.tar.gz
StartedAt: 2022-10-18 23:48:40 -0400 (Tue, 18 Oct 2022)
EndedAt: 2022-10-18 23:50:31 -0400 (Tue, 18 Oct 2022)
EllapsedTime: 111.0 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_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.15-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.2.1 (2022-06-23)
* 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 ‘1.2.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘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-3.15-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/4.2/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/4.2/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2/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/4.2/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2/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/4.2/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2/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/4.2/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2/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/4.2/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.2/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/4.2/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 4.2.1 (2022-06-23) -- "Funny-Looking Kid"
Copyright (C) 2022 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 [2022-10-18 23:49:59.241][biodb::testContext]
biodb.INFO [2022-10-18 23:49:59.258][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 23:49:59.260][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2022-10-18 23:49:59.262][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 23:49:59.264][biodb::testContext]
biodb.INFO [2022-10-18 23:49:59.267][biodb::testThat]
biodb.INFO [2022-10-18 23:49:59.269][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2022-10-18 23:49:59.272][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:49:59.274][biodb::testThat]
biodb.INFO [2022-10-18 23:49:59.452][biodb::testContext]
biodb.INFO [2022-10-18 23:49:59.454][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 23:49:59.456][biodb::testContext] Test context - Generic tests
biodb.INFO [2022-10-18 23:49:59.458][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 23:49:59.460][biodb::testContext]
biodb.INFO [2022-10-18 23:49:59.492][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.4.2.
biodb.DEBUG[2022-10-18 23:49:59.496][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-10-18 23:49:59.508][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 23:49:59.510][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-10-18 23:49:59.513][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-10-18 23:49:59.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.521][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-10-18 23:49:59.571][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-10-18 23:49:59.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.579][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-10-18 23:49:59.582][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-10-18 23:49:59.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.590][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-10-18 23:49:59.592][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-10-18 23:49:59.594][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-10-18 23:49:59.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.602][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-10-18 23:49:59.604][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-10-18 23:49:59.606][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-10-18 23:49:59.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.615][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-10-18 23:49:59.617][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-10-18 23:49:59.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.624][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-10-18 23:49:59.627][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-10-18 23:49:59.629][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-10-18 23:49:59.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.636][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-10-18 23:49:59.638][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-10-18 23:49:59.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.644][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[2022-10-18 23:49:59.646][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-10-18 23:49:59.649][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-10-18 23:49:59.651][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-10-18 23:49:59.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.659][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-10-18 23:49:59.661][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-10-18 23:49:59.663][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-10-18 23:49:59.665][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-10-18 23:49:59.667][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-10-18 23:49:59.670][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-10-18 23:49:59.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.674][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[2022-10-18 23:49:59.676][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-10-18 23:49:59.678][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-10-18 23:49:59.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.684][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-10-18 23:49:59.687][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-10-18 23:49:59.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.695][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-10-18 23:49:59.697][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-10-18 23:49:59.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.705][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-10-18 23:49:59.708][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-10-18 23:49:59.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.715][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-10-18 23:49:59.718][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-10-18 23:49:59.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.725][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-10-18 23:49:59.728][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-10-18 23:49:59.738][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-10-18 23:49:59.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.746][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-10-18 23:49:59.747][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-10-18 23:49:59.749][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-10-18 23:49:59.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:49:59.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:49:59.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:49:59.762][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-10-18 23:49:59.835][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:49:59.881][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-10-18 23:49:59.884][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:49:59.886][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:49:59.888][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:49:59.890][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:49:59.892][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:49:59.894][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:49:59.896][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 23:49:59.898][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:49:59.900][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:49:59.903][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-10-18 23:49:59.905][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:49:59.907][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:49:59.909][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:49:59.911][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 23:49:59.911][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 23:49:59.911][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 23:49:59.911][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 23:49:59.911][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 23:49:59.913][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:49:59.915][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:49:59.917][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:49:59.919][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:49:59.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:49:59.923][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:49:59.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:49:59.927][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:49:59.929][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:49:59.931][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:49:59.933][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:49:59.935][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:49:59.938][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-10-18 23:49:59.942][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:49:59.944][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 23:49:59.947][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:49:59.949][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:49:59.951][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:49:59.953][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:49:59.955][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:49:59.958][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:49:59.960][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 23:49:59.962][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:49:59.965][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:49:59.967][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-10-18 23:49:59.969][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:49:59.972][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:49:59.974][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:49:59.976][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 23:49:59.976][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 23:49:59.976][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 23:49:59.976][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 23:49:59.976][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 23:49:59.979][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:49:59.981][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:49:59.983][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:49:59.985][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:49:59.987][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:49:59.989][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:49:59.991][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:49:59.992][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:49:59.995][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:49:59.997][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:49:59.999][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:00.001][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:00.003][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-10-18 23:50:00.007][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.009][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-10-18 23:50:00.012][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.014][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:00.017][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.019][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:50:00.022][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:00.024][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:00.027][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 23:50:00.029][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:00.032][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:00.034][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-10-18 23:50:00.037][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:00.039][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:00.040][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.042][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:00.044][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:50:00.046][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:00.048][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:00.050][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:00.051][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:00.053][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:00.055][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:00.057][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:00.059][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:00.061][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:00.063][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:00.066][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:00.068][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-10-18 23:50:00.072][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.074][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 23:50:00.077][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.079][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:00.081][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.084][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:50:00.086][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:00.089][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:00.091][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 23:50:00.093][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:00.095][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:00.097][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-10-18 23:50:00.098][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:00.100][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:00.103][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.105][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:00.108][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:50:00.110][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:00.113][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:00.115][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:00.118][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:00.120][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:00.122][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:00.124][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:00.127][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:00.129][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:00.130][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:00.133][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:00.141][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 23:50:00.143][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.304][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-10-18 23:50:00.313][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-10-18 23:50:00.316][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-10-18 23:50:00.319][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-10-18 23:50:00.322][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-10-18 23:50:00.325][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-10-18 23:50:00.328][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-10-18 23:50:00.331][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-10-18 23:50:00.334][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-10-18 23:50:00.337][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-10-18 23:50:00.341][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 23:50:00.344][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-10-18 23:50:00.347][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-10-18 23:50:00.350][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-10-18 23:50:00.356][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-10-18 23:50:00.359][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-10-18 23:50:00.362][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-10-18 23:50:00.366][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-10-18 23:50:00.369][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-10-18 23:50:00.372][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-10-18 23:50:00.376][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-10-18 23:50:00.380][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-10-18 23:50:00.384][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-10-18 23:50:00.388][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-10-18 23:50:00.391][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-10-18 23:50:00.394][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-10-18 23:50:00.397][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-10-18 23:50:00.400][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-10-18 23:50:00.404][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-10-18 23:50:00.407][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-10-18 23:50:00.411][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-10-18 23:50:00.414][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-10-18 23:50:00.417][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-10-18 23:50:00.420][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-10-18 23:50:00.424][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-10-18 23:50:00.427][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-10-18 23:50:00.430][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-10-18 23:50:00.433][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-10-18 23:50:00.436][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-10-18 23:50:00.440][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-10-18 23:50:00.442][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-10-18 23:50:00.446][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-10-18 23:50:00.449][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-10-18 23:50:00.453][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-10-18 23:50:00.456][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-10-18 23:50:00.460][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-10-18 23:50:00.463][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-10-18 23:50:00.466][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-10-18 23:50:00.469][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-10-18 23:50:00.472][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-10-18 23:50:00.475][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-10-18 23:50:00.478][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-10-18 23:50:00.482][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-10-18 23:50:00.484][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-10-18 23:50:00.487][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-10-18 23:50:00.490][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-10-18 23:50:00.494][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-10-18 23:50:00.497][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-10-18 23:50:00.500][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-10-18 23:50:00.504][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-10-18 23:50:00.507][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-10-18 23:50:00.510][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-10-18 23:50:00.513][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-10-18 23:50:00.516][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-10-18 23:50:00.519][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-10-18 23:50:00.522][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-10-18 23:50:00.525][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-10-18 23:50:00.528][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-10-18 23:50:00.574][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-10-18 23:50:00.577][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-10-18 23:50:00.580][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-10-18 23:50:00.583][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-10-18 23:50:00.586][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-10-18 23:50:00.589][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-10-18 23:50:00.592][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-10-18 23:50:00.595][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-10-18 23:50:00.598][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-10-18 23:50:00.601][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-10-18 23:50:00.604][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-10-18 23:50:00.607][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-10-18 23:50:00.610][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-10-18 23:50:00.613][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-10-18 23:50:00.615][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-10-18 23:50:00.627][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-10-18 23:50:00.630][initialize] This is biodb version 1.4.2.
biodb.DEBUG[2022-10-18 23:50:00.637][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 23:50:00.639][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.642][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.644][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[2022-10-18 23:50:00.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.696][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[2022-10-18 23:50:00.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.877][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[2022-10-18 23:50:00.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:00.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:00.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:00.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:00.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:00.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:00.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:00.917][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-10-18 23:50:00.937][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:00.941][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:00.943][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-10-18 23:50:00.945][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.946][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:00.949][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:00.950][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-10-18 23:50:00.952][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.954][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:00.956][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-10-18 23:50:00.958][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:00.960][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.963][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-10-18 23:50:00.965][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-10-18 23:50:00.967][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-10-18 23:50:00.970][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:00.972][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 23:50:00.972][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-10-18 23:50:00.974][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-10-18 23:50:00.977][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:00.978][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:00.981][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:00.982][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:00.984][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:00.986][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:00.989][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-10-18 23:50:00.989][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-10-18 23:50:00.991][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:00.993][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:00.995][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:00.997][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:01.010][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-10-18 23:50:01.013][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-10-18 23:50:01.016][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 23:50:01.020][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-10-18 23:50:01.071][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:01.073][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-10-18 23:50:01.082][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:01.091][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-10-18 23:50:01.099][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:01.101][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:01.104][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-10-18 23:50:01.107][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-10-18 23:50:01.109][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-10-18 23:50:01.109][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-10-18 23:50:01.112][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:01.113][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:01.115][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-10-18 23:50:01.117][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-10-18 23:50:01.120][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:01.159][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-10-18 23:50:01.162][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:01.163][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:01.166][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2022-10-18 23:50:01.169][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:01.171][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-10-18 23:50:01.201][biodb::testThat]
biodb.INFO [2022-10-18 23:50:01.203][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2022-10-18 23:50:01.204][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:01.206][biodb::testThat]
biodb.TRACE[2022-10-18 23:50:01.214][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2022-10-18 23:50:01.222][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-10-18 23:50:01.230][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-10-18 23:50:01.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:01.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:01.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:01.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:01.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:01.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:01.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 23:50:01.305][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:01.307][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:01.309][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.311][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:01.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:01.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.352][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:01.354][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:01.356][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.358][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.409][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:01.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:01.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.424][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:01.427][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:01.430][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.432][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.435][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:01.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:01.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:01.451][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:01.453][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.455][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:01.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:01.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.472][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:01.473][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:01.474][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.476][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:01.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:01.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.494][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:01.495][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:01.497][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.498][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.499][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:01.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:01.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.519][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:01.521][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:01.523][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.525][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.527][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:01.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:01.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.538][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:01.540][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:01.541][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.543][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.546][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:01.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:01.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.557][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:01.560][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:01.562][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.563][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.566][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:01.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:01.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.580][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:01.583][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:01.585][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.587][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.589][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:01.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:01.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.600][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:01.602][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:01.604][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.606][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:01.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:01.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.621][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:01.623][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:01.625][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.626][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:01.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:01.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.637][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:01.639][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:01.640][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.642][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:01.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:01.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.656][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:01.658][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:01.660][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.662][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.664][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:01.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:01.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.674][ef$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:01.676][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:01.678][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.680][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.682][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:01.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:01.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.696][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:01.699][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:01.701][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.703][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.705][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:01.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:01.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.720][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-10-18 23:50:01.722][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:01.725][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.727][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.730][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-10-18 23:50:01.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:01.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:01.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:01.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:01.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:01.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:01.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:01.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.846][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:01.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:01.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.851][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:01.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:01.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.856][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:01.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:01.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.862][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:01.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:01.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.867][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:01.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:01.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.873][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:01.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:01.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:01.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:01.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:01.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:01.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:01.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:01.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:01.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:01.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:01.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:01.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:01.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:01.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.928][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:01.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:01.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:01.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:01.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.945][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:01.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:01.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.958][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:01.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:01.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.966][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:01.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:01.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.973][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:01.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:01.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.979][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:01.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:01.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.987][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:01.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:01.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:01.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:01.995][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:01.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:01.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.003][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:02.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:02.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.009][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:02.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:02.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.017][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:02.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:02.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.025][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:02.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:02.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.030][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:02.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:02.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.036][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:02.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:02.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:02.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:02.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:02.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:02.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.055][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:02.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:02.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.078][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.087][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.097][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.107][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:02.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:02.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:02.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:02.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:02.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:02.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.158][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.163][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.176][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.184][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:02.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:02.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.191][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:02.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:02.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.196][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:02.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:02.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.204][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-10-18 23:50:02.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.236][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-10-18 23:50:02.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:02.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.303][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.309][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.316][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.328][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.333][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.347][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:02.416][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2022-10-18 23:50:02.426][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 23:50:02.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 23:50:02.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.431][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 23:50:02.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 23:50:02.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.438][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-10-18 23:50:02.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-10-18 23:50:02.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.444][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-10-18 23:50:02.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-10-18 23:50:02.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.494][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.557][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.565][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.572][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:02.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.617][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.619][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.621][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.623][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:02.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:02.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:02.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:02.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:02.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:02.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:02.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:02.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.676][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:02.677][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:02.679][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.681][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:02.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:02.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.706][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.715][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.724][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.731][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.733][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.735][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.737][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.739][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:02.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:02.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:02.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:02.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:02.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:02.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:02.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.778][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:02.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:02.782][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.784][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:02.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:02.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.808][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.817][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.825][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.834][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.836][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.838][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.840][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.841][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:02.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.868][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.873][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.878][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.884][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.886][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.888][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.890][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:02.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:02.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.913][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:02.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:02.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.921][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:02.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:02.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.930][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:02.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:02.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.938][ef$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:02.940][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:02.942][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.944][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.946][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:02.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:02.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.969][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:02.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:02.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:02.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:02.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.980][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:02.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:02.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.985][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:02.987][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:02.989][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.990][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:02.992][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:02.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:02.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:02.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.010][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.018][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.026][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.033][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.036][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.038][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.040][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.042][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.088][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.090][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.092][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.093][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.116][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.134][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.141][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.143][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.145][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.147][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.149][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.175][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.183][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.191][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.193][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.195][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.197][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.199][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.229][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.236][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.243][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.245][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.246][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.248][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.250][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.271][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:03.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:03.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:03.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:03.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.287][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:03.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:03.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.303][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:03.305][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:03.307][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.308][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.310][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:03.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:03.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.333][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:03.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:03.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:03.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:03.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:03.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:03.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.358][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:03.360][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:03.362][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.363][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.365][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:03.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:03.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.387][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.404][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.410][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.412][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.414][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.416][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.439][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.447][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.455][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.463][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.465][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.467][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.469][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.471][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.493][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:03.496][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:03.498][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.500][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.509][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.511][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:03.513][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.515][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.526][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.536][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:03.538][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.540][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:03.553][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:03.555][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.557][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.568][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:03.570][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:03.572][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.574][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.584][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.587][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:03.589][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.591][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.602][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.604][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:03.606][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.608][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.618][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.621][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:03.623][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.625][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.637][ef$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:03.639][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:03.641][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.643][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.654][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:03.657][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:03.659][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.660][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.671][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:03.673][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:03.676][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.678][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.689][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.691][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:03.693][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.695][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.706][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:03.709][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:03.711][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.713][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.724][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.726][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:03.728][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.730][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.740][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:03.742][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:03.744][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.746][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.756][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:03.759][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:03.761][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.763][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:03.780][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:03.782][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:03.783][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:03.785][ef$get] fields variable is a list.
biodb.INFO [2022-10-18 23:50:03.797][biodb::testThat]
biodb.INFO [2022-10-18 23:50:03.799][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2022-10-18 23:50:03.801][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:03.803][biodb::testThat]
biodb.DEBUG[2022-10-18 23:50:03.835][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2022-10-18 23:50:03.850][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-10-18 23:50:03.856][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:03.860][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-10-18 23:50:03.864][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2022-10-18 23:50:03.867][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 23:50:03.870][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2022-10-18 23:50:03.873][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 23:50:03.962][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-10-18 23:50:03.964][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-10-18 23:50:03.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:03.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:03.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:03.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:03.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:03.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:03.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 23:50:03.994][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:03.996][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:03.999][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.009][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:04.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:04.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.025][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:04.027][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:04.029][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.031][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.033][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:04.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:04.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.046][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:04.048][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:04.050][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.051][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.054][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:04.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:04.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.068][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:04.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:04.072][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.074][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:04.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:04.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.088][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:04.090][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:04.092][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.094][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:04.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:04.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.109][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:04.111][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:04.112][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.114][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.116][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:04.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:04.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.130][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:04.132][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:04.135][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.137][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.140][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:04.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:04.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.154][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:04.155][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:04.156][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.157][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.159][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:04.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:04.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.172][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:04.175][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:04.177][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.179][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.181][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:04.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:04.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.195][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:04.198][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:04.200][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.202][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.204][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:04.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:04.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.219][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:04.221][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:04.223][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.225][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:04.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:04.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.251][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.253][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.255][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.257][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.275][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:04.277][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:04.279][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.281][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:04.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:04.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.297][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:04.299][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:04.301][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.303][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:04.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:04.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.318][ef$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:04.320][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:04.321][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.322][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.324][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:04.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:04.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.333][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:04.335][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:04.336][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.337][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.339][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:04.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:04.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.347][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-10-18 23:50:04.349][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:04.350][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.351][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.353][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-10-18 23:50:04.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:04.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:04.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:04.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:04.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:04.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:04.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:04.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.391][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:04.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:04.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.398][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:04.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:04.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.406][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:04.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:04.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.414][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:04.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:04.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.422][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:04.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:04.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.430][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:04.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:04.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:04.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:04.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:04.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:04.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:04.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:04.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:04.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:04.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:04.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:04.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:04.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:04.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.493][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:04.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:04.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.501][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:04.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:04.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.509][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:04.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:04.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.517][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:04.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:04.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.526][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:04.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:04.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.533][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:04.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:04.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.541][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:04.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:04.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.549][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:04.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:04.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.557][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:04.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:04.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.565][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:04.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:04.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.574][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:04.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:04.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.581][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:04.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:04.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.588][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:04.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:04.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.596][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:04.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:04.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.604][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:04.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:04.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:04.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:04.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.619][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:04.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:04.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:04.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:04.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.658][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:04.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:04.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.673][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:04.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:04.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.681][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:04.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:04.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:04.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:04.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:04.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:04.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:04.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:04.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.714][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:04.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:04.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:04.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:04.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.729][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:04.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:04.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.737][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:04.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:04.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.745][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:04.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:04.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.752][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:04.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:04.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.759][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:04.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:04.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.767][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:04.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:04.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.775][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:04.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:04.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.783][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-10-18 23:50:04.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.790][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.805][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.814][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-10-18 23:50:04.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:04.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.828][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:04.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:04.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.835][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:04.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:04.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.842][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:04.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:04.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.848][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:04.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:04.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.856][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:04.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:04.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.871][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:04.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:04.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.880][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:04.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:04.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:04.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:04.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.904][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:04.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:04.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:04.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:04.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:04.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:04.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:04.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:04.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:04.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:04.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:04.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:04.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:04.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:04.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:04.958][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2022-10-18 23:50:04.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2022-10-18 23:50:04.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2022-10-18 23:50:04.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2022-10-18 23:50:04.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2022-10-18 23:50:04.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:04.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2022-10-18 23:50:04.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2022-10-18 23:50:04.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:04.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-10-18 23:50:04.992][biodb::testThat]
biodb.INFO [2022-10-18 23:50:04.994][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2022-10-18 23:50:04.995][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:04.997][biodb::testThat]
biodb.TRACE[2022-10-18 23:50:05.002][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.005][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.007][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.008][ef$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:05.010][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2022-10-18 23:50:05.068][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.075][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:05.102][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2022-10-18 23:50:05.120][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-10-18 23:50:05.122][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-10-18 23:50:05.124][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-10-18 23:50:05.127][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:05.129][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:05.132][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-10-18 23:50:05.134][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:05.136][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-10-18 23:50:05.144][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-10-18 23:50:05.147][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-10-18 23:50:05.149][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-10-18 23:50:05.151][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-10-18 23:50:05.153][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-10-18 23:50:05.155][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-10-18 23:50:05.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.182][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:05.189][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-10-18 23:50:05.191][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-10-18 23:50:05.193][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2022-10-18 23:50:05.215][ef$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:05.217][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:05.219][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.221][ef$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:05.223][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2022-10-18 23:50:05.244][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:05.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:05.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.253][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:05.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:05.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.261][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:05.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:05.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:05.272][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[2022-10-18 23:50:05.399][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-10-18 23:50:05.401][private$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[2022-10-18 23:50:05.403][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2022-10-18 23:50:05.434][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:05.437][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:05.440][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-10-18 23:50:05.442][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:05.444][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-10-18 23:50:05.504][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-10-18 23:50:05.507][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-10-18 23:50:05.509][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-10-18 23:50:05.511][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-10-18 23:50:05.514][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-10-18 23:50:05.515][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-10-18 23:50:05.519][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:05.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:05.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.528][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:05.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:05.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.536][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:05.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:05.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.545][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:05.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:05.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:05.554][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-10-18 23:50:05.556][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-10-18 23:50:05.558][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2022-10-18 23:50:05.588][biodb::testThat]
biodb.INFO [2022-10-18 23:50:05.591][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2022-10-18 23:50:05.593][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:05.594][biodb::testThat]
biodb.TRACE[2022-10-18 23:50:05.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.636][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.644][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:05.688][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-10-18 23:50:05.689][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-10-18 23:50:05.691][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-10-18 23:50:05.694][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:05.696][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:05.699][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-10-18 23:50:05.701][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:05.703][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-10-18 23:50:05.710][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-10-18 23:50:05.712][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-10-18 23:50:05.714][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-10-18 23:50:05.717][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-10-18 23:50:05.719][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-10-18 23:50:05.720][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-10-18 23:50:05.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.737][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.745][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:05.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:05.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:05.760][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-10-18 23:50:05.761][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2022-10-18 23:50:05.786][biodb::testThat]
biodb.INFO [2022-10-18 23:50:05.788][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2022-10-18 23:50:05.790][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:05.792][biodb::testThat]
biodb.TRACE[2022-10-18 23:50:05.847][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 23:50:05.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 23:50:05.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.854][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 23:50:05.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 23:50:05.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.862][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-10-18 23:50:05.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-10-18 23:50:05.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.871][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-10-18 23:50:05.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-10-18 23:50:05.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.978][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 23:50:05.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 23:50:05.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.985][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-10-18 23:50:05.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-10-18 23:50:05.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:05.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:05.994][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-10-18 23:50:05.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-10-18 23:50:05.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:06.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:06.003][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-10-18 23:50:06.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-10-18 23:50:06.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:06.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-10-18 23:50:06.014][biodb::testThat]
biodb.INFO [2022-10-18 23:50:06.016][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2022-10-18 23:50:06.018][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:06.020][biodb::testThat]
biodb.INFO [2022-10-18 23:50:06.029][biodb::testThat]
biodb.INFO [2022-10-18 23:50:06.031][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2022-10-18 23:50:06.034][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:06.036][biodb::testThat]
biodb.INFO [2022-10-18 23:50:06.046][biodb::testThat]
biodb.INFO [2022-10-18 23:50:06.048][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2022-10-18 23:50:06.049][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:06.051][biodb::testThat]
biodb.DEBUG[2022-10-18 23:50:06.057][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2022-10-18 23:50:13.060][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2022-10-18 23:50:13.147][biodb::testThat]
biodb.INFO [2022-10-18 23:50:13.149][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2022-10-18 23:50:13.152][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:13.154][biodb::testThat]
biodb.DEBUG[2022-10-18 23:50:13.447][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2022-10-18 23:50:13.524][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:13.526][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:13.528][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:13.530][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:13.532][ef$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:13.534][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:13.536][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:13.537][ef$get] fields variable is a list.
biodb.INFO [2022-10-18 23:50:13.540][biodb::testThat]
biodb.INFO [2022-10-18 23:50:13.542][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2022-10-18 23:50:13.544][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:13.546][biodb::testThat]
biodb.DEBUG[2022-10-18 23:50:13.551][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2022-10-18 23:50:13.668][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-10-18 23:50:13.671][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:13.675][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-10-18 23:50:13.711][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2022-10-18 23:50:13.713][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 23:50:13.715][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 23:50:13.718][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 23:50:13.721][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:13.753][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-10-18 23:50:13.755][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-10-18 23:50:13.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:13.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:13.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:13.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:13.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:13.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:13.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 23:50:13.780][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:13.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:13.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:13.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:13.788][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:13.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:13.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:13.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:13.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:13.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:13.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:13.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:13.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:13.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:13.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:13.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:13.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:13.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:13.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:13.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:13.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:13.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:13.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:13.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:13.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:13.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:13.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:13.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:13.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:13.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:13.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:13.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:13.854][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-10-18 23:50:13.856][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2022-10-18 23:50:13.880][biodb::testThat]
biodb.INFO [2022-10-18 23:50:13.882][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2022-10-18 23:50:13.884][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:13.885][biodb::testThat]
biodb.DEBUG[2022-10-18 23:50:13.901][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2022-10-18 23:50:13.903][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2022-10-18 23:50:13.906][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-10-18 23:50:13.909][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:13.912][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-10-18 23:50:13.915][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2022-10-18 23:50:13.918][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-10-18 23:50:13.921][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-10-18 23:50:13.923][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 23:50:13.927][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:13.962][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-10-18 23:50:13.965][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-10-18 23:50:13.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:13.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:13.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:13.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:13.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:13.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:13.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 23:50:14.003][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:14.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:14.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:14.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:14.012][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:14.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:14.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:14.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:14.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:14.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:14.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:14.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:14.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:14.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:14.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:14.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:14.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:14.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:14.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:14.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:14.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:14.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:14.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:14.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:14.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:14.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:14.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:14.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:14.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:14.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:14.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:14.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:14.067][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-10-18 23:50:14.069][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2022-10-18 23:50:14.070][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2022-10-18 23:50:14.093][biodb::testThat]
biodb.INFO [2022-10-18 23:50:14.095][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2022-10-18 23:50:14.097][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:14.099][biodb::testThat]
biodb.INFO [2022-10-18 23:50:14.143][biodb::testThat]
biodb.INFO [2022-10-18 23:50:14.145][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2022-10-18 23:50:14.147][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:14.149][biodb::testThat]
biodb.DEBUG[2022-10-18 23:50:14.154][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:14.157][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:14.161][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-10-18 23:50:14.172][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:14.174][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-10-18 23:50:14.183][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-10-18 23:50:14.186][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-10-18 23:50:14.188][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-10-18 23:50:14.190][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2022-10-18 23:50:14.200][biodb::testThat]
biodb.INFO [2022-10-18 23:50:14.202][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2022-10-18 23:50:14.204][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:14.205][biodb::testThat]
biodb.DEBUG[2022-10-18 23:50:14.210][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:14.213][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:14.216][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-10-18 23:50:14.219][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:14.221][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-10-18 23:50:14.229][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-10-18 23:50:14.231][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-10-18 23:50:14.232][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-10-18 23:50:14.233][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2022-10-18 23:50:14.253][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:14.255][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:14.256][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:14.258][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:14.260][ef$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:14.262][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:14.264][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:14.266][ef$get] fields variable is a list.
biodb.INFO [2022-10-18 23:50:14.268][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-10-18 23:50:14.270][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-10-18 23:50:14.288][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-10-18 23:50:14.290][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-10-18 23:50:14.292][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:14.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:14.295][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:14.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:14.299][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-10-18 23:50:14.308][biodb::testContext]
biodb.INFO [2022-10-18 23:50:14.311][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 23:50:14.313][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2022-10-18 23:50:14.315][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 23:50:14.317][biodb::testContext]
biodb.INFO [2022-10-18 23:50:14.328][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.4.2.
biodb.DEBUG[2022-10-18 23:50:14.331][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-10-18 23:50:14.346][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 23:50:14.348][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-10-18 23:50:14.349][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-10-18 23:50:14.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.356][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-10-18 23:50:14.359][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-10-18 23:50:14.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.366][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-10-18 23:50:14.368][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-10-18 23:50:14.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.375][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-10-18 23:50:14.377][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-10-18 23:50:14.379][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-10-18 23:50:14.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.386][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-10-18 23:50:14.388][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-10-18 23:50:14.390][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-10-18 23:50:14.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.396][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-10-18 23:50:14.398][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-10-18 23:50:14.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.406][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-10-18 23:50:14.408][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-10-18 23:50:14.411][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-10-18 23:50:14.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.416][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-10-18 23:50:14.418][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-10-18 23:50:14.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.426][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-10-18 23:50:14.427][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-10-18 23:50:14.429][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-10-18 23:50:14.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.437][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-10-18 23:50:14.439][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-10-18 23:50:14.442][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-10-18 23:50:14.444][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-10-18 23:50:14.446][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-10-18 23:50:14.448][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-10-18 23:50:14.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.455][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-10-18 23:50:14.457][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-10-18 23:50:14.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.464][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-10-18 23:50:14.466][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-10-18 23:50:14.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.471][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[2022-10-18 23:50:14.473][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-10-18 23:50:14.475][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-10-18 23:50:14.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.482][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-10-18 23:50:14.484][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-10-18 23:50:14.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.489][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[2022-10-18 23:50:14.492][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-10-18 23:50:14.494][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-10-18 23:50:14.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.502][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-10-18 23:50:14.673][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-10-18 23:50:14.684][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-10-18 23:50:14.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.692][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-10-18 23:50:14.694][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-10-18 23:50:14.696][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-10-18 23:50:14.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.703][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-10-18 23:50:14.705][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.707][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-10-18 23:50:14.709][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.711][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:14.713][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.716][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.718][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.720][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.722][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 23:50:14.724][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:14.725][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.727][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-10-18 23:50:14.728][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:14.730][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.732][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.734][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 23:50:14.734][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 23:50:14.734][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 23:50:14.734][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 23:50:14.734][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 23:50:14.736][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:50:14.738][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:14.739][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:14.741][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:14.743][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:14.744][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:14.746][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.748][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.750][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:14.752][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:14.754][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.755][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.758][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-10-18 23:50:14.761][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.763][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 23:50:14.765][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.766][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:14.767][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.769][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.771][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.773][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.775][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 23:50:14.777][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:14.779][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.781][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-10-18 23:50:14.782][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:14.784][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.786][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.787][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 23:50:14.787][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 23:50:14.787][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 23:50:14.787][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 23:50:14.787][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 23:50:14.789][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:50:14.791][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:14.792][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:14.794][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:14.796][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:14.797][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:14.799][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.801][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.803][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:14.805][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:14.807][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.809][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.812][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-10-18 23:50:14.815][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.818][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-10-18 23:50:14.820][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.822][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:14.824][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.826][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.828][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.829][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.831][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 23:50:14.833][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:14.835][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.837][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-10-18 23:50:14.839][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:14.841][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.843][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.844][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.846][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:50:14.848][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:14.850][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:14.851][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:14.853][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:14.855][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:14.857][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.859][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.861][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:14.863][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:14.865][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.866][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.869][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-10-18 23:50:14.872][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.875][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 23:50:14.877][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.878][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:14.880][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.881][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.883][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.885][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.887][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 23:50:14.888][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:14.890][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.892][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-10-18 23:50:14.894][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:14.896][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.898][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:14.900][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.901][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:50:14.903][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:14.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:14.907][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:14.910][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:14.911][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:14.913][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:14.915][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.917][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:14.919][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:14.921][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:14.924][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:14.927][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 23:50:14.930][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:14.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:14.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.941][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[2022-10-18 23:50:14.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:14.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:14.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.947][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[2022-10-18 23:50:14.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:14.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:14.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:14.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:14.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:14.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:14.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.978][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[2022-10-18 23:50:14.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:14.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:14.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:14.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:14.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:14.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:14.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:14.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.107][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-10-18 23:50:15.110][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-10-18 23:50:15.114][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-10-18 23:50:15.117][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-10-18 23:50:15.121][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-10-18 23:50:15.124][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-10-18 23:50:15.127][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-10-18 23:50:15.131][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-10-18 23:50:15.133][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-10-18 23:50:15.136][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-10-18 23:50:15.139][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 23:50:15.142][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-10-18 23:50:15.145][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-10-18 23:50:15.149][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-10-18 23:50:15.152][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-10-18 23:50:15.156][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-10-18 23:50:15.160][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-10-18 23:50:15.163][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-10-18 23:50:15.167][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-10-18 23:50:15.171][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-10-18 23:50:15.173][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-10-18 23:50:15.177][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-10-18 23:50:15.181][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-10-18 23:50:15.185][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-10-18 23:50:15.188][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-10-18 23:50:15.192][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-10-18 23:50:15.195][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-10-18 23:50:15.198][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-10-18 23:50:15.201][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-10-18 23:50:15.205][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-10-18 23:50:15.208][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-10-18 23:50:15.212][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-10-18 23:50:15.215][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-10-18 23:50:15.217][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-10-18 23:50:15.221][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-10-18 23:50:15.224][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-10-18 23:50:15.228][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-10-18 23:50:15.232][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-10-18 23:50:15.235][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-10-18 23:50:15.239][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-10-18 23:50:15.242][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-10-18 23:50:15.245][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-10-18 23:50:15.247][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-10-18 23:50:15.251][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-10-18 23:50:15.255][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-10-18 23:50:15.258][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-10-18 23:50:15.261][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-10-18 23:50:15.264][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-10-18 23:50:15.267][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-10-18 23:50:15.271][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-10-18 23:50:15.274][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-10-18 23:50:15.278][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-10-18 23:50:15.281][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-10-18 23:50:15.284][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-10-18 23:50:15.288][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-10-18 23:50:15.291][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-10-18 23:50:15.295][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-10-18 23:50:15.299][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-10-18 23:50:15.302][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-10-18 23:50:15.306][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-10-18 23:50:15.309][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-10-18 23:50:15.313][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-10-18 23:50:15.316][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-10-18 23:50:15.319][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-10-18 23:50:15.322][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-10-18 23:50:15.324][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-10-18 23:50:15.326][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-10-18 23:50:15.328][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-10-18 23:50:15.330][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-10-18 23:50:15.333][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-10-18 23:50:15.337][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-10-18 23:50:15.340][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-10-18 23:50:15.343][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-10-18 23:50:15.347][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-10-18 23:50:15.358][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-10-18 23:50:15.362][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-10-18 23:50:15.365][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-10-18 23:50:15.368][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-10-18 23:50:15.371][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-10-18 23:50:15.374][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-10-18 23:50:15.376][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-10-18 23:50:15.379][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-10-18 23:50:15.381][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-10-18 23:50:15.384][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-10-18 23:50:15.387][initialize] This is biodb version 1.4.2.
biodb.DEBUG[2022-10-18 23:50:15.388][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 23:50:15.390][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.394][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.396][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[2022-10-18 23:50:15.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.450][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[2022-10-18 23:50:15.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.540][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[2022-10-18 23:50:15.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:15.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:15.590][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-10-18 23:50:15.593][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:15.596][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:15.598][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-10-18 23:50:15.600][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:15.602][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:15.605][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:15.607][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-10-18 23:50:15.609][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:15.611][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:15.613][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-10-18 23:50:15.615][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:15.617][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:15.619][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-10-18 23:50:15.621][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-10-18 23:50:15.623][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-10-18 23:50:15.626][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:15.628][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 23:50:15.628][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-10-18 23:50:15.630][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-10-18 23:50:15.633][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:15.635][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:15.637][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:15.639][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:15.641][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:15.643][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:15.646][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-10-18 23:50:15.646][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-10-18 23:50:15.648][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:15.650][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:15.652][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:15.654][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:15.657][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-10-18 23:50:15.660][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-10-18 23:50:15.664][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 23:50:15.668][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-10-18 23:50:15.675][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:15.677][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-10-18 23:50:15.679][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:15.682][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-10-18 23:50:15.684][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:15.686][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:15.689][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-10-18 23:50:15.691][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-10-18 23:50:15.693][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-10-18 23:50:15.693][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-10-18 23:50:15.695][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:15.697][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:15.699][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-10-18 23:50:15.701][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-10-18 23:50:15.703][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:15.705][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-10-18 23:50:15.708][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:15.710][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:15.712][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2022-10-18 23:50:15.715][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:15.717][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-10-18 23:50:15.719][biodb::testThat]
biodb.INFO [2022-10-18 23:50:15.722][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2022-10-18 23:50:15.724][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:15.726][biodb::testThat]
biodb.DEBUG[2022-10-18 23:50:15.734][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:15.737][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:15.740][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-10-18 23:50:15.743][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:15.745][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-10-18 23:50:15.754][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-10-18 23:50:15.757][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-10-18 23:50:15.759][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-10-18 23:50:15.761][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-10-18 23:50:15.766][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2022-10-18 23:50:15.770][biodb::testThat]
biodb.INFO [2022-10-18 23:50:15.772][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2022-10-18 23:50:15.774][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:15.775][biodb::testThat]
biodb.DEBUG[2022-10-18 23:50:15.780][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2022-10-18 23:50:15.782][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-10-18 23:50:15.786][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:15.789][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-10-18 23:50:15.793][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2022-10-18 23:50:15.796][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 23:50:15.800][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2022-10-18 23:50:15.802][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 23:50:15.828][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-10-18 23:50:15.830][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-10-18 23:50:15.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:15.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:15.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:15.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:15.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:15.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:15.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 23:50:15.856][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:15.858][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:15.859][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.861][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:15.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:15.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.876][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:15.878][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:15.880][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.882][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.885][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:15.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:15.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.898][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:15.900][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:15.902][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.904][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.907][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:15.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:15.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.921][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:15.923][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:15.925][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.927][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:15.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:15.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.944][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:15.946][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:15.948][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.950][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:15.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:15.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.966][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:15.969][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:15.971][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.973][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.976][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:15.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:15.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:15.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:15.998][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:16.001][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:16.003][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.005][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.007][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:16.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:16.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.019][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:16.022][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:16.023][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.025][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.027][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:16.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:16.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.041][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:16.043][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:16.045][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.046][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.048][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:16.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:16.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.062][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:16.064][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:16.067][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.069][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.070][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:16.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:16.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.080][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:16.082][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:16.084][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.086][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.089][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:16.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:16.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.104][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.107][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.109][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.111][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.126][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:16.129][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:16.131][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.133][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:16.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:16.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.143][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:16.145][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:16.146][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.147][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.149][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:16.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:16.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.158][ef$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:16.160][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:16.161][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.162][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.164][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:16.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:16.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.174][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:16.176][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:16.177][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.178][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.180][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:16.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:16.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.192][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-10-18 23:50:16.194][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:16.195][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.196][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.198][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-10-18 23:50:16.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:16.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.226][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:16.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:16.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.232][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:16.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:16.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.240][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:16.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:16.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.247][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:16.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:16.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.255][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:16.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:16.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.263][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:16.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:16.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:16.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:16.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:16.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:16.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:16.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:16.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:16.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:16.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:16.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:16.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:16.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:16.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.320][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:16.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:16.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.328][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:16.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:16.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.334][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:16.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:16.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.342][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:16.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:16.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.350][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:16.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:16.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.357][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:16.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:16.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.364][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:16.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:16.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.374][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:16.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:16.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.380][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:16.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:16.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.387][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:16.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:16.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.396][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:16.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:16.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.405][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:16.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:16.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.414][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:16.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:16.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.419][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:16.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:16.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:16.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:16.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.431][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:16.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:16.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:16.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:16.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:16.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:16.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.453][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.479][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:16.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:16.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.489][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:16.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:16.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.497][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:16.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:16.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:16.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:16.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:16.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:16.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:16.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:16.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.524][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:16.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:16.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:16.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:16.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:16.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:16.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.548][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:16.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:16.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.555][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:16.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:16.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.562][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:16.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:16.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.568][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:16.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:16.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.576][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:16.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:16.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.592][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:16.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:16.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.600][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-10-18 23:50:16.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.629][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-10-18 23:50:16.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:16.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.643][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:16.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:16.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.652][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:16.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:16.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:16.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:16.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:16.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:16.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:16.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:16.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.687][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:16.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:16.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.694][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:16.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:16.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.712][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:16.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:16.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:16.766][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2022-10-18 23:50:16.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:16.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:16.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:16.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:16.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-10-18 23:50:16.799][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-10-18 23:50:16.802][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-10-18 23:50:16.804][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-10-18 23:50:16.806][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-10-18 23:50:16.808][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:16.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:16.811][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:16.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:16.815][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-10-18 23:50:16.823][biodb::testContext]
biodb.INFO [2022-10-18 23:50:16.825][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 23:50:16.827][biodb::testContext] Test context - Test search of entries
biodb.INFO [2022-10-18 23:50:16.829][biodb::testContext] ********************************************************************************
biodb.INFO [2022-10-18 23:50:16.831][biodb::testContext]
biodb.INFO [2022-10-18 23:50:16.845][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.4.2.
biodb.DEBUG[2022-10-18 23:50:16.848][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2022-10-18 23:50:16.854][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 23:50:16.856][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-10-18 23:50:16.858][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-10-18 23:50:16.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:16.865][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-10-18 23:50:16.868][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-10-18 23:50:16.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:16.875][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-10-18 23:50:16.877][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-10-18 23:50:16.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:16.884][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-10-18 23:50:16.886][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-10-18 23:50:16.888][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-10-18 23:50:16.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:16.893][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-10-18 23:50:16.895][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-10-18 23:50:16.897][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-10-18 23:50:16.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:16.904][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-10-18 23:50:16.906][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-10-18 23:50:16.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:16.913][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-10-18 23:50:16.915][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-10-18 23:50:16.917][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-10-18 23:50:16.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.923][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[2022-10-18 23:50:16.925][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-10-18 23:50:16.927][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-10-18 23:50:16.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:16.935][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-10-18 23:50:16.937][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-10-18 23:50:16.938][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-10-18 23:50:16.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.941][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[2022-10-18 23:50:16.943][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-10-18 23:50:16.945][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-10-18 23:50:16.947][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-10-18 23:50:16.949][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-10-18 23:50:16.951][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-10-18 23:50:16.953][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-10-18 23:50:16.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:16.960][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-10-18 23:50:16.962][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-10-18 23:50:16.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:16.969][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-10-18 23:50:16.971][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-10-18 23:50:16.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:16.979][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-10-18 23:50:16.981][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-10-18 23:50:16.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.987][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[2022-10-18 23:50:16.989][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-10-18 23:50:16.991][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-10-18 23:50:16.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:16.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:16.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:16.997][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-10-18 23:50:16.999][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-10-18 23:50:17.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.008][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-10-18 23:50:17.010][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-10-18 23:50:17.021][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2022-10-18 23:50:17.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.027][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-10-18 23:50:17.029][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-10-18 23:50:17.031][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-10-18 23:50:17.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.038][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-10-18 23:50:17.041][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.043][self$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[2022-10-18 23:50:17.045][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.047][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:17.049][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.051][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.053][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.055][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.057][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 23:50:17.059][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:17.062][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.064][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-10-18 23:50:17.066][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:17.068][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.070][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.072][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 23:50:17.072][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 23:50:17.072][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 23:50:17.072][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 23:50:17.072][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 23:50:17.075][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:50:17.077][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:17.079][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:17.081][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:17.083][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:17.084][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:17.086][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.088][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.090][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:17.092][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:17.094][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.096][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.099][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-10-18 23:50:17.102][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.103][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 23:50:17.105][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.106][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:17.107][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.109][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.111][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.113][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.116][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 23:50:17.118][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:17.120][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.122][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-10-18 23:50:17.125][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:17.127][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.129][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.131][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 23:50:17.131][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-10-18 23:50:17.131][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-10-18 23:50:17.131][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-10-18 23:50:17.131][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-10-18 23:50:17.134][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:50:17.136][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:17.137][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:17.139][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:17.141][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:17.143][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:17.145][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.147][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.149][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:17.150][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:17.152][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.155][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.157][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-10-18 23:50:17.160][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.162][self$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[2022-10-18 23:50:17.164][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.166][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:17.168][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.170][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.172][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.175][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.176][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-10-18 23:50:17.178][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:17.181][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.183][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-10-18 23:50:17.185][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:17.187][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.189][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.191][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.193][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:50:17.195][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:17.197][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:17.199][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:17.201][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:17.202][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:17.204][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.206][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.208][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:17.210][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:17.211][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.213][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.225][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-10-18 23:50:17.229][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.231][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-10-18 23:50:17.233][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.235][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:17.237][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.239][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.241][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.242][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.244][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-10-18 23:50:17.246][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:17.248][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.250][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-10-18 23:50:17.252][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:17.254][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.256][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.258][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.260][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-10-18 23:50:17.262][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:17.264][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:17.265][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:17.267][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:17.268][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:17.269][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.271][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.273][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:17.274][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:17.276][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.278][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.280][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 23:50:17.281][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.283][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[2022-10-18 23:50:17.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.351][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[2022-10-18 23:50:17.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.359][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[2022-10-18 23:50:17.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.369][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[2022-10-18 23:50:17.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.386][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[2022-10-18 23:50:17.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.431][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-10-18 23:50:17.434][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-10-18 23:50:17.437][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-10-18 23:50:17.439][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-10-18 23:50:17.442][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-10-18 23:50:17.445][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-10-18 23:50:17.448][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-10-18 23:50:17.451][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-10-18 23:50:17.454][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-10-18 23:50:17.457][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-10-18 23:50:17.460][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 23:50:17.463][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-10-18 23:50:17.466][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-10-18 23:50:17.469][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-10-18 23:50:17.472][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-10-18 23:50:17.475][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-10-18 23:50:17.479][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-10-18 23:50:17.481][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-10-18 23:50:17.482][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-10-18 23:50:17.485][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-10-18 23:50:17.487][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-10-18 23:50:17.490][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-10-18 23:50:17.494][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-10-18 23:50:17.497][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-10-18 23:50:17.500][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-10-18 23:50:17.502][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-10-18 23:50:17.504][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-10-18 23:50:17.507][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-10-18 23:50:17.510][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-10-18 23:50:17.513][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-10-18 23:50:17.515][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-10-18 23:50:17.518][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-10-18 23:50:17.522][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-10-18 23:50:17.525][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-10-18 23:50:17.528][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-10-18 23:50:17.531][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-10-18 23:50:17.535][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-10-18 23:50:17.538][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-10-18 23:50:17.541][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-10-18 23:50:17.544][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-10-18 23:50:17.547][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-10-18 23:50:17.550][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-10-18 23:50:17.553][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-10-18 23:50:17.557][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-10-18 23:50:17.560][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-10-18 23:50:17.563][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-10-18 23:50:17.567][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-10-18 23:50:17.570][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-10-18 23:50:17.573][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-10-18 23:50:17.576][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-10-18 23:50:17.578][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-10-18 23:50:17.581][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-10-18 23:50:17.584][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-10-18 23:50:17.587][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-10-18 23:50:17.590][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-10-18 23:50:17.593][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-10-18 23:50:17.596][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-10-18 23:50:17.599][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-10-18 23:50:17.602][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-10-18 23:50:17.605][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-10-18 23:50:17.608][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-10-18 23:50:17.611][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-10-18 23:50:17.614][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-10-18 23:50:17.617][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-10-18 23:50:17.620][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-10-18 23:50:17.622][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-10-18 23:50:17.625][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-10-18 23:50:17.628][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-10-18 23:50:17.631][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-10-18 23:50:17.634][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-10-18 23:50:17.637][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-10-18 23:50:17.639][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-10-18 23:50:17.642][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-10-18 23:50:17.645][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-10-18 23:50:17.648][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-10-18 23:50:17.651][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-10-18 23:50:17.654][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-10-18 23:50:17.658][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-10-18 23:50:17.661][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-10-18 23:50:17.664][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-10-18 23:50:17.667][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-10-18 23:50:17.670][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-10-18 23:50:17.673][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-10-18 23:50:17.677][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-10-18 23:50:17.680][initialize] This is biodb version 1.4.2.
biodb.DEBUG[2022-10-18 23:50:17.683][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-10-18 23:50:17.684][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.688][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-10-18 23:50:17.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:17.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:17.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:17.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:17.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:17.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:17.908][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-10-18 23:50:17.910][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:17.912][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.914][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.916][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.918][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-10-18 23:50:17.920][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.922][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-10-18 23:50:17.924][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.926][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.928][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-10-18 23:50:17.929][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-10-18 23:50:17.931][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.933][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-10-18 23:50:17.935][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-10-18 23:50:17.937][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-10-18 23:50:17.940][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-10-18 23:50:17.942][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-10-18 23:50:17.942][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-10-18 23:50:17.944][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-10-18 23:50:17.946][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:17.948][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:17.950][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-10-18 23:50:17.952][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-10-18 23:50:17.954][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-10-18 23:50:17.955][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-10-18 23:50:17.957][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-10-18 23:50:17.957][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-10-18 23:50:17.958][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:17.959][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:17.961][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-10-18 23:50:17.963][self$setPropertyValue]
biodb.DEBUG[2022-10-18 23:50:17.966][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-10-18 23:50:17.970][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-10-18 23:50:17.973][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-10-18 23:50:17.977][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-10-18 23:50:17.984][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:17.986][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-10-18 23:50:17.989][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:17.992][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-10-18 23:50:17.994][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:17.996][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:17.999][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-10-18 23:50:18.001][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-10-18 23:50:18.003][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-10-18 23:50:18.003][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-10-18 23:50:18.005][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-10-18 23:50:18.007][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-10-18 23:50:18.009][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-10-18 23:50:18.011][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-10-18 23:50:18.013][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-10-18 23:50:18.016][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-10-18 23:50:18.018][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:18.020][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:18.023][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.2/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2022-10-18 23:50:18.026][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-10-18 23:50:18.028][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-10-18 23:50:18.030][biodb::testThat]
biodb.INFO [2022-10-18 23:50:18.032][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2022-10-18 23:50:18.034][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-10-18 23:50:18.036][biodb::testThat]
biodb.DEBUG[2022-10-18 23:50:18.057][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-10-18 23:50:18.060][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2022-10-18 23:50:18.061][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2022-10-18 23:50:18.065][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:18.068][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:18.071][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-10-18 23:50:18.073][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:18.075][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-10-18 23:50:18.083][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-10-18 23:50:18.086][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-10-18 23:50:18.088][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-10-18 23:50:18.089][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-10-18 23:50:18.092][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-10-18 23:50:18.094][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2022-10-18 23:50:18.097][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2022-10-18 23:50:18.099][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-10-18 23:50:18.102][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:18.105][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-10-18 23:50:18.110][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2022-10-18 23:50:18.113][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 23:50:18.116][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2022-10-18 23:50:18.119][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 23:50:18.147][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-10-18 23:50:18.149][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-10-18 23:50:18.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:18.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:18.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:18.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:18.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:18.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:18.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 23:50:18.175][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:18.177][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:18.178][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.180][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:18.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:18.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.193][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:18.196][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:18.197][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.199][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.202][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:18.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:18.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.214][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:18.216][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:18.217][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.219][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.221][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:18.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:18.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:18.236][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:18.238][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.240][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:18.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:18.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.255][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:18.257][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:18.259][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.261][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:18.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:18.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.275][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:18.278][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:18.280][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.281][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.284][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:18.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:18.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.298][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:18.300][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:18.302][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.304][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.306][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:18.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:18.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.321][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:18.323][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:18.325][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.327][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.330][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:18.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:18.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.343][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:18.345][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:18.347][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.349][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.351][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:18.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:18.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.364][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:18.366][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:18.368][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.369][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.370][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:18.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:18.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.382][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:18.385][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:18.387][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.389][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:18.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:18.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.404][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.407][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.409][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.410][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.425][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:18.427][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:18.428][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.429][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:18.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:18.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.445][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:18.447][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:18.449][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.451][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:18.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:18.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.471][ef$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:18.473][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:18.474][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.475][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.477][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:18.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:18.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.488][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:18.490][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:18.492][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.493][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.496][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:18.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:18.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.507][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-10-18 23:50:18.509][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:18.510][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.511][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.513][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-10-18 23:50:18.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:18.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:18.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:18.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:18.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:18.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:18.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:18.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.541][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:18.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:18.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.547][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:18.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:18.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.551][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:18.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:18.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.557][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:18.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:18.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.563][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:18.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:18.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.569][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:18.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:18.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:18.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:18.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:18.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:18.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:18.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:18.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:18.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:18.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:18.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:18.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:18.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:18.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.616][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:18.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:18.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.623][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:18.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:18.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.631][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:18.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:18.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.639][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:18.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:18.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.644][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:18.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:18.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.652][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:18.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:18.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.658][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:18.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:18.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.666][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:18.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:18.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.673][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:18.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:18.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.680][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:18.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:18.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.687][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:18.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:18.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.693][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:18.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:18.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.701][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:18.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:18.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.708][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:18.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:18.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.716][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:18.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:18.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:18.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:18.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:18.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:18.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:18.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:18.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.761][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:18.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:18.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.767][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:18.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:18.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.775][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:18.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:18.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:18.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:18.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:18.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:18.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:18.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:18.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.806][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:18.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:18.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.814][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:18.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:18.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.822][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:18.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:18.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.830][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:18.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:18.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.836][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:18.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:18.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.843][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:18.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:18.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.850][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:18.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:18.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.857][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:18.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:18.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.863][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:18.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:18.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.868][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-10-18 23:50:18.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.882][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.887][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.895][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-10-18 23:50:18.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:18.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.911][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:18.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:18.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.917][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:18.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:18.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.922][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:18.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:18.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.927][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:18.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:18.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.932][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:18.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:18.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.946][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:18.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:18.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.952][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:18.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:18.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:18.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:18.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.967][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:18.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:18.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:18.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:18.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:18.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:18.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:18.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:18.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:18.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:18.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:19.031][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2022-10-18 23:50:19.034][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:19.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:19.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.041][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:19.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:19.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.047][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:19.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:19.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.054][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:19.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:19.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:19.062][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-10-18 23:50:19.064][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-10-18 23:50:19.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:19.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:19.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:19.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:19.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:19.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:19.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:19.086][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2022-10-18 23:50:19.088][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-10-18 23:50:19.091][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:19.094][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-10-18 23:50:19.098][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2022-10-18 23:50:19.100][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-10-18 23:50:19.103][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2022-10-18 23:50:19.105][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-10-18 23:50:19.133][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-10-18 23:50:19.135][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-10-18 23:50:19.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:19.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:19.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:19.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:19.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:19.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:19.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 23:50:19.160][ef$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.161][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.162][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.163][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.175][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:19.177][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:19.179][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.181][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.183][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:19.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:19.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.197][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:19.199][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:19.201][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.203][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.205][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:19.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:19.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.217][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:19.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:19.219][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.220][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:19.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:19.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.231][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:19.232][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:19.233][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.235][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:19.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:19.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.249][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:19.251][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:19.253][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.255][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.256][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:19.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:19.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.265][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:19.268][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:19.270][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.271][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.274][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:19.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:19.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.282][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:19.284][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:19.285][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.286][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.288][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:19.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:19.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.300][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:19.302][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:19.303][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.304][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.306][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:19.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:19.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.315][ef$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:19.316][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:19.317][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.318][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.320][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:19.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:19.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.332][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:19.334][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:19.335][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.337][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:19.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:19.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.352][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.354][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.355][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.357][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.370][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:19.372][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:19.374][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.376][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:19.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:19.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.391][ef$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:19.393][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:19.395][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.397][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.399][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:19.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:19.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.410][ef$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:19.412][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:19.414][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.416][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.418][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:19.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:19.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.430][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:19.433][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:19.435][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.437][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.439][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:19.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:19.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.454][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-10-18 23:50:19.456][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:19.458][ef$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.460][ef$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.463][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-10-18 23:50:19.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:19.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.496][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:19.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:19.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.501][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:19.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:19.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.510][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-10-18 23:50:19.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-10-18 23:50:19.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.517][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:19.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:19.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.522][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:19.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:19.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.528][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-10-18 23:50:19.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-10-18 23:50:19.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:19.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:19.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:19.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:19.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-10-18 23:50:19.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-10-18 23:50:19.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:19.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:19.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:19.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:19.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:19.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-10-18 23:50:19.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.582][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:19.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:19.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.587][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:19.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:19.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.596][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:19.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-10-18 23:50:19.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.603][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:19.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:19.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.610][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:19.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:19.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.618][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:19.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-10-18 23:50:19.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.624][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:19.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:19.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.629][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:19.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:19.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.636][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:19.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-10-18 23:50:19.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.645][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:19.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:19.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.650][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:19.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:19.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.656][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:19.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:19.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.664][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:19.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:19.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.669][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:19.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:19.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.675][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-10-18 23:50:19.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-10-18 23:50:19.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:19.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:19.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.689][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:19.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:19.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-10-18 23:50:19.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-10-18 23:50:19.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.702][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.707][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.723][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:19.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:19.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.732][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:19.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:19.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.740][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:19.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-10-18 23:50:19.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:19.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:19.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:19.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:19.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:19.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-10-18 23:50:19.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.774][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:19.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:19.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.783][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:19.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:19.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.789][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:19.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:19.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.797][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:19.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:19.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.805][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:19.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:19.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.813][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:19.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-10-18 23:50:19.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.821][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:19.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:19.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.827][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:19.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:19.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.834][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-10-18 23:50:19.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-10-18 23:50:19.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.842][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-10-18 23:50:19.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.873][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-10-18 23:50:19.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-10-18 23:50:19.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:19.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:19.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.896][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:19.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:19.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.905][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:19.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:19.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.914][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:19.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:19.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.923][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-10-18 23:50:19.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-10-18 23:50:19.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.940][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:19.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:19.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.949][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:19.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:19.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.967][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:19.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-10-18 23:50:19.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:19.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:19.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:19.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:19.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:20.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:20.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:20.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:20.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-10-18 23:50:20.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-10-18 23:50:20.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:20.032][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2022-10-18 23:50:20.034][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.043][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.053][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.062][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:20.070][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-10-18 23:50:20.072][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2022-10-18 23:50:20.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:20.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:20.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:20.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:20.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:20.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:20.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-10-18 23:50:20.121][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-10-18 23:50:20.123][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2022-10-18 23:50:20.125][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2022-10-18 23:50:20.129][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:20.132][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:20.135][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-10-18 23:50:20.141][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:20.144][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-10-18 23:50:20.153][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-10-18 23:50:20.156][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-10-18 23:50:20.158][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-10-18 23:50:20.161][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-10-18 23:50:20.164][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-10-18 23:50:20.166][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-10-18 23:50:20.171][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.183][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.193][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.210][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.219][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.228][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.236][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:20.244][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-10-18 23:50:20.246][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-10-18 23:50:20.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:20.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:20.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:20.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:20.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:20.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:20.269][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.TRACE[2022-10-18 23:50:20.272][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.280][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.289][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.298][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.307][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.316][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.324][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:20.333][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2022-10-18 23:50:20.335][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-10-18 23:50:20.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:20.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:20.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:20.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:20.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:20.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:20.357][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[2022-10-18 23:50:20.380][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-10-18 23:50:20.383][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2022-10-18 23:50:20.385][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2022-10-18 23:50:20.388][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:20.391][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:20.394][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-10-18 23:50:20.397][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-10-18 23:50:20.399][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-10-18 23:50:20.408][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-10-18 23:50:20.410][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-10-18 23:50:20.412][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-10-18 23:50:20.414][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-10-18 23:50:20.416][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-10-18 23:50:20.418][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-10-18 23:50:20.421][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.429][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.438][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.446][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.453][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.462][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.470][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:20.479][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2022-10-18 23:50:20.482][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2022-10-18 23:50:20.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:20.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:20.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:20.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:20.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:20.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:20.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-10-18 23:50:20.507][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.515][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.523][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.532][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.541][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.550][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-10-18 23:50:20.559][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-10-18 23:50:20.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-10-18 23:50:20.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-10-18 23:50:20.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-10-18 23:50:20.568][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-10-18 23:50:20.570][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-10-18 23:50:20.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-10-18 23:50:20.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:20.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:20.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:20.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:20.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:20.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-10-18 23:50:20.601][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-10-18 23:50:20.604][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-10-18 23:50:20.606][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-10-18 23:50:20.608][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-10-18 23:50:20.610][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-10-18 23:50:20.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-10-18 23:50:20.614][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-10-18 23:50:20.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-10-18 23:50:20.618][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-10-18 23:50:20.620][FUN] Functions in observer 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 186 ]
> 
> proc.time()
   user  system elapsed 
 17.737   0.537  25.411 

Example timings

biodbHmdb.Rcheck/biodbHmdb-Ex.timings

nameusersystemelapsed
HmdbMetabolitesConn3.4550.6584.178
HmdbMetabolitesEntry0.6690.0150.695