Multiple platform build/check report for BioC 3.19 - CHECK results for biodbHmdb on kjohnson3

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.4.0 (2024-04-24) -- "Puppy Cup"	4757
palomino3	Windows Server 2022 Datacenter	x64	4.4.0 (2024-04-24 ucrt) -- "Puppy Cup"	4491
lconway	macOS 12.7.1 Monterey	x86_64	4.4.0 (2024-04-24) -- "Puppy Cup"	4522
kjohnson3	macOS 13.6.5 Ventura	arm64	4.4.0 (2024-04-24) -- "Puppy Cup"	4468
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 kjohnson3

To the developers/maintainers of the biodbHmdb package:
- 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 Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: biodbHmdb

Version: 1.10.0

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_1.10.0.tar.gz

StartedAt: 2024-06-10 08:52:25 -0400 (Mon, 10 Jun 2024)

EndedAt: 2024-06-10 08:53:44 -0400 (Mon, 10 Jun 2024)

EllapsedTime: 79.2 seconds

RetCode: 0

Status: WARNINGS

CheckDir: biodbHmdb.Rcheck

Warnings: 1

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_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.5
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.10.0’
* 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
* used C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
* used SDK: ‘MacOSX11.3.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* 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 ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.19-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/4.4-arm64/Resources/library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c EntryMaker.cpp -o EntryMaker.o
EntryMaker.cpp:6:5: warning: field 'accession_tag' will be initialized after field 'closed' [-Wreorder-ctor]
    accession_tag("<accession>", "</accession>"),
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    closed(true)
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c FileEntryMaker.cpp -o FileEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c TagDetector.cpp -o TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c XmlSplitter.cpp -o XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-100-TagDetector.cpp -o test-100-TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-runner.cpp -o test-runner.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  ‘biodbHmdb’ 
*** 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 4.4.0 (2024-04-24) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2024-06-10 08:53:23.255][biodb::testContext]
biodb.INFO [2024-06-10 08:53:23.260][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 08:53:23.262][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-06-10 08:53:23.263][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 08:53:23.265][biodb::testContext]
biodb.INFO [2024-06-10 08:53:23.267][biodb::testThat]
biodb.INFO [2024-06-10 08:53:23.268][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2024-06-10 08:53:23.270][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:23.271][biodb::testThat]
biodb.INFO [2024-06-10 08:53:23.453][biodb::testContext]
biodb.INFO [2024-06-10 08:53:23.454][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 08:53:23.455][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-06-10 08:53:23.456][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 08:53:23.457][biodb::testContext]
biodb.INFO [2024-06-10 08:53:23.468][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-10 08:53:23.471][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-10 08:53:23.484][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 08:53:23.489][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-10 08:53:23.490][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-10 08:53:23.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.498][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-10 08:53:23.556][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-10 08:53:23.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.560][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-10 08:53:23.561][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-10 08:53:23.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.564][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-10 08:53:23.565][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-10 08:53:23.566][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-10 08:53:23.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.569][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-10 08:53:23.570][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-10 08:53:23.571][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-10 08:53:23.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.574][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-10 08:53:23.575][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-10 08:53:23.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.577][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[2024-06-10 08:53:23.578][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-10 08:53:23.579][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-10 08:53:23.580][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-10 08:53:23.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.582][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-10 08:53:23.583][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-10 08:53:23.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.586][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-10 08:53:23.587][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-10 08:53:23.587][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-10 08:53:23.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.590][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-10 08:53:23.591][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-10 08:53:23.592][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-10 08:53:23.593][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-10 08:53:23.594][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-10 08:53:23.595][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-10 08:53:23.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.598][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-10 08:53:23.599][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-10 08:53:23.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.602][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-10 08:53:23.603][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-10 08:53:23.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.606][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-10 08:53:23.607][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-10 08:53:23.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.611][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-10 08:53:23.612][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-10 08:53:23.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.616][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-10 08:53:23.617][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-10 08:53:23.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.621][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-10 08:53:23.622][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-10 08:53:23.662][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-10 08:53:23.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.665][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[2024-06-10 08:53:23.666][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-10 08:53:23.667][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-10 08:53:23.668][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-10 08:53:23.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.680][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-10 08:53:23.719][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.733][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-10 08:53:23.734][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.735][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:23.736][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.737][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.737][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.738][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.739][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 08:53:23.740][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:23.740][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.741][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-10 08:53:23.742][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:23.743][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.743][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.744][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 08:53:23.744][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 08:53:23.744][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 08:53:23.744][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 08:53:23.744][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 08:53:23.745][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:23.746][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:23.746][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:23.747][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:23.748][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:23.749][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:23.749][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.765][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.766][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:23.766][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:23.767][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.768][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.769][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-10 08:53:23.770][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.772][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 08:53:23.773][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.774][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:23.775][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.776][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.777][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.778][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.779][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 08:53:23.780][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:23.781][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.782][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-10 08:53:23.783][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:23.783][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.784][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.785][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 08:53:23.785][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 08:53:23.785][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 08:53:23.785][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 08:53:23.785][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 08:53:23.786][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:23.787][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:23.788][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:23.789][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:23.789][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:23.790][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:23.791][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.792][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.793][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:23.794][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:23.795][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.796][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.797][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-10 08:53:23.799][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.800][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-10 08:53:23.801][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.803][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:23.804][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.804][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.805][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.806][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.807][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 08:53:23.807][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:23.808][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.809][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-10 08:53:23.809][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:23.810][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.811][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.812][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.812][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:23.813][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:23.814][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:23.814][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:23.815][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:23.816][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:23.816][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.817][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.818][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:23.819][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:23.819][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.820][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.821][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-10 08:53:23.823][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.824][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 08:53:23.825][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.825][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:23.826][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.827][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.828][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.829][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.829][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 08:53:23.830][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:23.831][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.832][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-10 08:53:23.833][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:23.833][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.834][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:23.835][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.836][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:23.837][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:23.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:23.838][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:23.839][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:23.839][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:23.840][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:23.841][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.842][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:23.842][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:23.843][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:23.844][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:23.848][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 08:53:23.849][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.863][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[2024-06-10 08:53:23.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.873][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[2024-06-10 08:53:23.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.882][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[2024-06-10 08:53:23.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:23.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.902][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[2024-06-10 08:53:23.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:23.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:23.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:23.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:23.906][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[2024-06-10 08:53:23.907][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-10 08:53:23.923][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-10 08:53:23.925][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-10 08:53:23.926][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-10 08:53:23.927][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-10 08:53:23.928][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-10 08:53:23.929][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-10 08:53:23.930][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-10 08:53:23.931][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-10 08:53:23.932][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-10 08:53:23.933][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 08:53:23.934][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-10 08:53:23.935][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-10 08:53:23.936][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-10 08:53:23.937][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-10 08:53:23.939][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-10 08:53:23.940][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-10 08:53:23.941][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-10 08:53:23.942][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-10 08:53:23.943][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-10 08:53:23.945][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-10 08:53:23.946][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-10 08:53:23.947][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-10 08:53:23.948][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-10 08:53:23.950][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-10 08:53:23.951][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-10 08:53:23.952][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-10 08:53:23.953][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-10 08:53:23.954][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-10 08:53:23.955][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-10 08:53:23.956][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-10 08:53:23.957][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-10 08:53:23.958][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-10 08:53:23.959][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-10 08:53:23.960][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-10 08:53:23.962][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-10 08:53:23.963][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-10 08:53:23.964][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-10 08:53:23.965][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-10 08:53:23.966][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-10 08:53:23.967][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-10 08:53:23.968][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-10 08:53:23.969][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-10 08:53:23.970][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-10 08:53:23.971][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-10 08:53:23.972][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-10 08:53:23.974][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-10 08:53:23.975][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-10 08:53:23.976][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-10 08:53:23.977][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-10 08:53:23.978][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-10 08:53:23.979][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-10 08:53:23.980][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-10 08:53:23.981][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-10 08:53:23.983][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-10 08:53:23.984][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-10 08:53:23.985][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-10 08:53:23.987][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-10 08:53:23.989][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-10 08:53:23.990][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-10 08:53:23.992][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-10 08:53:23.993][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-10 08:53:23.994][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-10 08:53:23.996][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-10 08:53:23.997][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-10 08:53:23.998][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-10 08:53:24.000][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-10 08:53:24.001][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-10 08:53:24.002][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-10 08:53:24.003][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-10 08:53:24.005][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-10 08:53:24.006][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-10 08:53:24.008][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-10 08:53:24.009][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-10 08:53:24.010][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-10 08:53:24.012][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-10 08:53:24.013][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-10 08:53:24.015][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-10 08:53:24.017][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-10 08:53:24.019][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-10 08:53:24.020][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-10 08:53:24.021][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-10 08:53:24.023][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-10 08:53:24.029][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-10 08:53:24.031][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-10 08:53:24.034][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 08:53:24.035][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.037][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.059][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[2024-06-10 08:53:24.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:24.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:24.300][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-06-10 08:53:24.321][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:24.324][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:24.326][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-10 08:53:24.327][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:24.330][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:24.332][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:24.333][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-06-10 08:53:24.334][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:24.335][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:24.336][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-10 08:53:24.337][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:24.340][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:24.341][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-06-10 08:53:24.342][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-06-10 08:53:24.345][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-06-10 08:53:24.346][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:24.349][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 08:53:24.349][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-06-10 08:53:24.349][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-06-10 08:53:24.351][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-10 08:53:24.352][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:24.354][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:24.355][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:24.356][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:24.356][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:24.357][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:24.358][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-10 08:53:24.358][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-06-10 08:53:24.361][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:24.362][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:24.363][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:24.363][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:24.369][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-06-10 08:53:24.370][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-10 08:53:24.371][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-10 08:53:24.373][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 08:53:24.374][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-10 08:53:24.406][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:24.408][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-06-10 08:53:24.412][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:24.416][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-10 08:53:24.420][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:24.421][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:24.422][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-06-10 08:53:24.423][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-06-10 08:53:24.424][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-10 08:53:24.424][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-06-10 08:53:24.425][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:24.426][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:24.427][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-06-10 08:53:24.428][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-06-10 08:53:24.429][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:24.466][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-10 08:53:24.467][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:24.468][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:24.470][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-10 08:53:24.471][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:24.472][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-06-10 08:53:24.482][biodb::testThat]
biodb.INFO [2024-06-10 08:53:24.484][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-06-10 08:53:24.485][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:24.486][biodb::testThat]
biodb.TRACE[2024-06-10 08:53:24.493][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-06-10 08:53:24.497][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-10 08:53:24.501][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-10 08:53:24.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:24.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:24.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:24.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:24.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:24.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:24.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 08:53:24.535][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:24.537][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:24.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.539][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:24.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:24.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.566][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:24.567][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:24.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.568][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.593][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:24.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:24.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.597][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:24.598][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:24.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.600][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.602][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:24.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:24.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.609][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:24.614][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:24.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.617][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.621][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:24.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:24.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.629][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:24.630][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:24.633][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.635][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:24.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:24.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.644][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:24.645][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:24.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.649][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:24.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:24.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.656][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:24.660][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:24.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.662][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.666][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:24.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:24.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.674][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:24.677][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:24.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.708][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.711][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:24.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:24.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.720][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:24.722][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:24.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.727][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.729][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:24.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:24.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.734][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:24.740][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:24.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.742][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.745][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:24.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:24.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.753][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:24.757][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:24.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.759][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.763][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:24.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:24.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.770][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:24.771][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:24.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.774][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:24.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:24.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.782][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:24.786][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:24.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.788][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.789][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:24.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:24.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.793][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:24.793][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:24.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.795][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:24.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:24.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.799][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:24.800][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:24.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.801][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:24.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:24.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.805][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:24.806][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:24.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.808][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.809][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:24.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:24.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.812][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:24.813][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:24.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.814][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.815][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:24.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:24.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.819][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-10 08:53:24.820][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:24.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.822][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.823][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-10 08:53:24.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:24.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:24.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:24.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:24.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:24.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:24.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:24.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.868][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:24.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:24.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.887][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:24.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:24.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.892][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:24.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:24.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.896][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:24.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:24.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.900][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:24.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:24.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.904][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:24.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:24.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:24.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:24.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:24.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:24.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:24.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:24.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:24.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:24.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:24.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:24.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:24.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:24.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:24.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:24.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:24.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:24.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.941][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:24.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:24.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:24.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:24.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.948][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:24.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:24.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.953][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:24.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:24.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.957][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:24.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:24.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.960][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:24.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:24.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.964][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:24.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:24.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.968][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:24.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:24.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.972][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:24.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:24.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.977][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:24.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:24.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.984][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:24.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:24.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.991][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:24.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:24.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:24.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:24.998][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:24.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:25.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:25.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:25.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:25.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:25.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:25.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:25.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.016][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.023][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.027][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.031][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:25.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:25.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:25.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:25.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:25.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:25.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.058][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.061][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.064][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.068][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.073][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.077][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.080][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.083][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.086][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.089][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:25.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:25.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.093][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:25.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:25.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.096][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:25.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:25.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.100][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-10 08:53:25.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.114][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-10 08:53:25.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:25.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.138][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.152][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.156][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.165][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:25.206][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-06-10 08:53:25.209][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 08:53:25.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 08:53:25.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.213][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 08:53:25.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 08:53:25.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.217][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-10 08:53:25.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-10 08:53:25.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.221][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-10 08:53:25.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-10 08:53:25.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.275][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.336][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.343][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.349][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:25.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.405][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.410][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.412][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:25.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:25.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.437][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.446][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.454][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.462][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.465][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.493][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.498][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:25.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:25.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:25.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:25.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:25.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:25.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:25.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.544][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:25.545][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:25.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.548][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:25.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:25.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.574][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.586][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.594][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.600][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.601][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.607][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.608][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:25.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:25.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:25.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:25.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:25.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:25.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:25.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.663][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:25.664][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:25.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.671][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:25.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:25.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.698][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.707][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.719][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.729][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.730][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.735][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.736][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:25.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.770][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.777][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.784][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.792][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.797][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.799][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:25.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:25.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.860][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:25.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:25.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.867][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:25.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:25.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.880][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:25.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:25.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.887][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:25.888][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:25.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.891][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.893][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:25.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:25.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.916][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:25.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:25.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.924][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:25.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:25.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.931][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:25.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:25.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.939][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:25.944][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:25.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.946][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.950][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:25.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:25.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.975][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:25.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:25.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.980][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:25.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:25.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:25.989][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:25.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:25.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:25.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.000][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:26.001][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:26.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.003][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.009][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:26.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:26.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.059][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.060][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.063][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.091][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.096][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.103][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.108][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.112][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.114][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.117][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.153][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.159][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.163][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.170][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.171][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.174][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.176][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.199][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.206][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.212][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.217][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.218][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.222][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.223][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.248][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:26.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:26.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.254][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:26.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:26.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.259][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:26.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:26.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.264][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:26.265][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:26.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.268][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.270][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:26.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:26.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:26.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:26.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:26.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:26.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:26.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:26.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.306][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:26.307][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:26.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.309][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:26.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:26.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.326][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.339][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.340][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.342][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.343][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.357][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.379][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.384][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.388][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.389][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.391][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.392][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.409][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:26.411][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:26.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.414][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.425][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:26.426][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:26.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.433][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.443][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.444][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.446][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:26.460][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:26.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.463][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.473][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:26.474][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:26.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.478][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.490][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.491][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:26.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.496][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.503][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.504][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:26.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.507][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.516][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.520][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:26.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.522][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.533][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:26.534][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:26.536][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.539][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.547][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:26.550][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:26.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.552][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.561][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:26.563][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:26.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.565][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.578][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.579][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:26.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.582][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.589][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:26.591][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:26.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.596][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.606][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.608][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:26.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.611][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.619][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:26.621][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:26.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.625][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.635][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:26.637][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:26.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.638][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.649][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:26.650][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:26.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.675][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.690][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:26.691][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:26.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.697][ef$get] fields variable is a list.
biodb.INFO [2024-06-10 08:53:26.711][biodb::testThat]
biodb.INFO [2024-06-10 08:53:26.714][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-06-10 08:53:26.715][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:26.716][biodb::testThat]
biodb.DEBUG[2024-06-10 08:53:26.740][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-06-10 08:53:26.752][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-10 08:53:26.761][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:26.763][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-10 08:53:26.766][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-06-10 08:53:26.767][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 08:53:26.770][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-06-10 08:53:26.774][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 08:53:26.812][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-10 08:53:26.815][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-10 08:53:26.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:26.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:26.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:26.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:26.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:26.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:26.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 08:53:26.847][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:26.849][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:26.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.852][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:26.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:26.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.863][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:26.865][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:26.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.867][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.872][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:26.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:26.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.882][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:26.883][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:26.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.888][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.889][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:26.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:26.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.897][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.902][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.904][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.909][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:26.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.916][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:26.917][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:26.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.923][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:26.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:26.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.934][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:26.938][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:26.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.940][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:26.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:26.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.982][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:26.984][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:26.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.989][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.990][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:26.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:26.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:26.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:26.998][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:27.003][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:27.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.005][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.010][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:27.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:27.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.021][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:27.027][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:27.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.033][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.034][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:27.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:27.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.043][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:27.048][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:27.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.050][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.054][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:27.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:27.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.061][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:27.062][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:27.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.069][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.070][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:27.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:27.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.080][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:27.085][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:27.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.087][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:27.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:27.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.100][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.101][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.103][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.116][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:27.117][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:27.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.123][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:27.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:27.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.135][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.136][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.141][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.151][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:27.152][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:27.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.158][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.159][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:27.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:27.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.170][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:27.171][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:27.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.174][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.181][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:27.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:27.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.190][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-10 08:53:27.192][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:27.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.194][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.196][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-10 08:53:27.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:27.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:27.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:27.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:27.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:27.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:27.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:27.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.234][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:27.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:27.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.243][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:27.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:27.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.250][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:27.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:27.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.256][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:27.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:27.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.266][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:27.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:27.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.274][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:27.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:27.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:27.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:27.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:27.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:27.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:27.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:27.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:27.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:27.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:27.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:27.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:27.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:27.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.358][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:27.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:27.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.370][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:27.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:27.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.381][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:27.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:27.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.391][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:27.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:27.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.403][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:27.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:27.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.413][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:27.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:27.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.426][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:27.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:27.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.437][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:27.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:27.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.446][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:27.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:27.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.453][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:27.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:27.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.463][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:27.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:27.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.469][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:27.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:27.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.475][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:27.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:27.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.482][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:27.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:27.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.487][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:27.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:27.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:27.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:27.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:27.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:27.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.503][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:27.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:27.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.516][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.526][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:27.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:27.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.531][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:27.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:27.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.538][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:27.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:27.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:27.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:27.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:27.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:27.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:27.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:27.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.561][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.590][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.596][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:27.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:27.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.600][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:27.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:27.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.607][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:27.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:27.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.615][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:27.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:27.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.621][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:27.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:27.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.631][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:27.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:27.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.637][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:27.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:27.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.642][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:27.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:27.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.648][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:27.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:27.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.656][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-10 08:53:27.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.664][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.681][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.687][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-10 08:53:27.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:27.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.700][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.713][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.724][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:27.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:27.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.729][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:27.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:27.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:27.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:27.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.739][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:27.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:27.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:27.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:27.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:27.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:27.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:27.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:27.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:27.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:27.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:27.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:27.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:27.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:27.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:27.776][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-06-10 08:53:27.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-06-10 08:53:27.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-06-10 08:53:27.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-06-10 08:53:27.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-06-10 08:53:27.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-06-10 08:53:27.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-06-10 08:53:27.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-10 08:53:27.830][biodb::testThat]
biodb.INFO [2024-06-10 08:53:27.831][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-06-10 08:53:27.832][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:27.836][biodb::testThat]
biodb.TRACE[2024-06-10 08:53:27.841][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.843][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.845][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:27.846][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-06-10 08:53:27.886][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:27.911][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-06-10 08:53:27.912][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-06-10 08:53:27.914][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-10 08:53:27.916][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-10 08:53:27.918][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:27.920][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:27.921][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-10 08:53:27.923][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:27.924][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-10 08:53:27.925][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-10 08:53:27.929][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-10 08:53:27.930][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-10 08:53:27.932][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-10 08:53:27.933][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-10 08:53:27.934][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-10 08:53:27.937][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.943][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.949][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:27.954][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:27.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:27.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:27.960][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-10 08:53:27.961][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-10 08:53:27.962][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-06-10 08:53:27.983][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:27.984][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:27.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:27.989][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:27.991][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-06-10 08:53:28.009][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:28.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:28.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.015][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:28.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:28.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.019][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:28.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:28.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:28.028][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[2024-06-10 08:53:28.101][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-10 08:53:28.103][private$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[2024-06-10 08:53:28.104][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-06-10 08:53:28.130][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:28.132][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:28.136][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-10 08:53:28.139][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:28.142][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-10 08:53:28.165][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-10 08:53:28.166][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-10 08:53:28.169][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-10 08:53:28.170][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-10 08:53:28.172][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-10 08:53:28.176][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-10 08:53:28.181][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:28.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:28.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.191][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:28.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:28.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.203][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:28.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:28.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.212][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:28.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:28.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:28.224][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-10 08:53:28.225][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-10 08:53:28.251][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-06-10 08:53:28.281][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.286][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.288][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:28.293][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-06-10 08:53:28.323][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.332][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.343][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:28.357][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-06-10 08:53:28.359][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-06-10 08:53:28.359][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-06-10 08:53:28.360][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-06-10 08:53:28.366][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:28.369][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:28.371][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-10 08:53:28.373][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:28.378][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-10 08:53:28.379][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-10 08:53:28.381][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-10 08:53:28.385][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-10 08:53:28.386][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-10 08:53:28.387][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-10 08:53:28.392][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-10 08:53:28.395][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.402][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.414][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.423][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:28.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:28.430][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-10 08:53:28.435][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-10 08:53:28.436][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-06-10 08:53:28.474][biodb::testThat]
biodb.INFO [2024-06-10 08:53:28.477][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-06-10 08:53:28.478][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:28.479][biodb::testThat]
biodb.TRACE[2024-06-10 08:53:28.509][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:28.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:28.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.518][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:28.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:28.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:28.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:28.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:28.554][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-06-10 08:53:28.555][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-10 08:53:28.559][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-10 08:53:28.561][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:28.565][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:28.567][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-10 08:53:28.571][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:28.573][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-10 08:53:28.576][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-10 08:53:28.578][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-10 08:53:28.578][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-10 08:53:28.579][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-10 08:53:28.583][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-10 08:53:28.609][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-10 08:53:28.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:28.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:28.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.618][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:28.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:28.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:28.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:28.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:28.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:28.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:28.637][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-10 08:53:28.638][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-06-10 08:53:28.659][biodb::testThat]
biodb.INFO [2024-06-10 08:53:28.660][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-06-10 08:53:28.661][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:28.662][biodb::testThat]
biodb.TRACE[2024-06-10 08:53:28.686][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 08:53:28.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 08:53:28.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.690][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 08:53:28.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 08:53:28.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.694][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-10 08:53:28.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-10 08:53:28.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.698][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-10 08:53:28.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-10 08:53:28.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.739][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 08:53:28.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 08:53:28.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.743][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-10 08:53:28.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-10 08:53:28.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.761][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-10 08:53:28.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-10 08:53:28.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:28.766][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-10 08:53:28.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-10 08:53:28.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:28.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-10 08:53:28.782][biodb::testThat]
biodb.INFO [2024-06-10 08:53:28.783][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-06-10 08:53:28.786][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:28.787][biodb::testThat]
biodb.INFO [2024-06-10 08:53:28.800][biodb::testThat]
biodb.INFO [2024-06-10 08:53:28.801][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-06-10 08:53:28.803][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:28.806][biodb::testThat]
biodb.INFO [2024-06-10 08:53:28.817][biodb::testThat]
biodb.INFO [2024-06-10 08:53:28.819][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-06-10 08:53:28.821][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:28.822][biodb::testThat]
biodb.DEBUG[2024-06-10 08:53:28.828][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-06-10 08:53:32.924][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-06-10 08:53:33.012][biodb::testThat]
biodb.INFO [2024-06-10 08:53:33.014][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-06-10 08:53:33.020][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:33.022][biodb::testThat]
biodb.DEBUG[2024-06-10 08:53:33.302][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-06-10 08:53:33.402][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:33.407][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:33.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.408][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.412][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:33.413][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:33.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.415][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.420][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:33.421][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:33.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.425][ef$get] fields variable is a list.
biodb.INFO [2024-06-10 08:53:33.427][biodb::testThat]
biodb.INFO [2024-06-10 08:53:33.432][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-06-10 08:53:33.433][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:33.434][biodb::testThat]
biodb.DEBUG[2024-06-10 08:53:33.439][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-06-10 08:53:33.530][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-10 08:53:33.533][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:33.536][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-10 08:53:33.557][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-06-10 08:53:33.559][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-10 08:53:33.561][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-10 08:53:33.562][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 08:53:33.567][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:33.569][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-10 08:53:33.572][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-10 08:53:33.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:33.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:33.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:33.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:33.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:33.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:33.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 08:53:33.600][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:33.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:33.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.609][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:33.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:33.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:33.663][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-06-10 08:53:33.665][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-06-10 08:53:33.704][biodb::testThat]
biodb.INFO [2024-06-10 08:53:33.706][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-06-10 08:53:33.707][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:33.709][biodb::testThat]
biodb.DEBUG[2024-06-10 08:53:33.815][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-06-10 08:53:33.819][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-06-10 08:53:33.820][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-10 08:53:33.826][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:33.828][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-10 08:53:33.831][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-06-10 08:53:33.833][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-10 08:53:33.835][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-10 08:53:33.836][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 08:53:33.842][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:33.844][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-10 08:53:33.850][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-10 08:53:33.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:33.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:33.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:33.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:33.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:33.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:33.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 08:53:33.877][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:33.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:33.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.887][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:33.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:33.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:33.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:33.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:33.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:33.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:33.936][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-06-10 08:53:33.938][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-06-10 08:53:33.939][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-06-10 08:53:33.968][biodb::testThat]
biodb.INFO [2024-06-10 08:53:33.972][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-06-10 08:53:33.973][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:33.974][biodb::testThat]
biodb.INFO [2024-06-10 08:53:34.026][biodb::testThat]
biodb.INFO [2024-06-10 08:53:34.028][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-06-10 08:53:34.028][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:34.029][biodb::testThat]
biodb.DEBUG[2024-06-10 08:53:34.038][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:34.043][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:34.072][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-10 08:53:34.080][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:34.082][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-10 08:53:34.086][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-10 08:53:34.088][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-10 08:53:34.093][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-10 08:53:34.094][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-06-10 08:53:34.111][biodb::testThat]
biodb.INFO [2024-06-10 08:53:34.113][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-06-10 08:53:34.114][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:34.117][biodb::testThat]
biodb.DEBUG[2024-06-10 08:53:34.120][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:34.125][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:34.127][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-10 08:53:34.129][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:34.130][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-10 08:53:34.132][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-10 08:53:34.136][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-10 08:53:34.138][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-10 08:53:34.139][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-06-10 08:53:34.156][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:34.157][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:34.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:34.162][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:34.163][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:34.165][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:34.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:34.168][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:34.169][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:34.170][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:34.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:34.172][ef$get] fields variable is a list.
biodb.INFO [2024-06-10 08:53:34.173][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-10 08:53:34.175][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-06-10 08:53:34.188][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-06-10 08:53:34.189][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-10 08:53:34.190][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.192][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.194][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-10 08:53:34.202][biodb::testContext]
biodb.INFO [2024-06-10 08:53:34.204][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 08:53:34.205][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-06-10 08:53:34.206][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 08:53:34.208][biodb::testContext]
biodb.INFO [2024-06-10 08:53:34.214][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-10 08:53:34.220][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-10 08:53:34.229][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 08:53:34.230][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-10 08:53:34.232][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-10 08:53:34.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.236][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-10 08:53:34.240][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-10 08:53:34.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.244][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-10 08:53:34.246][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-10 08:53:34.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.249][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-10 08:53:34.254][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-10 08:53:34.255][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-10 08:53:34.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.259][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-10 08:53:34.260][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-10 08:53:34.261][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-10 08:53:34.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.267][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-10 08:53:34.268][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-10 08:53:34.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.294][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-10 08:53:34.297][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-10 08:53:34.302][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-10 08:53:34.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.308][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-10 08:53:34.313][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-10 08:53:34.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.322][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-10 08:53:34.324][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-10 08:53:34.325][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-10 08:53:34.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.329][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-10 08:53:34.332][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-10 08:53:34.334][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-10 08:53:34.335][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-10 08:53:34.336][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-10 08:53:34.338][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-10 08:53:34.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.346][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-10 08:53:34.348][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-10 08:53:34.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.353][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-10 08:53:34.357][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-10 08:53:34.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.359][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[2024-06-10 08:53:34.363][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-10 08:53:34.364][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-10 08:53:34.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.371][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-10 08:53:34.372][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-10 08:53:34.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.377][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-10 08:53:34.378][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-10 08:53:34.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.385][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-10 08:53:34.388][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-10 08:53:34.415][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-10 08:53:34.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.419][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-10 08:53:34.420][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-10 08:53:34.422][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-10 08:53:34.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.431][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-10 08:53:34.434][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.436][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-10 08:53:34.438][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.439][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:34.441][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.443][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.447][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.449][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.450][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 08:53:34.453][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:34.454][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.456][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-10 08:53:34.459][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:34.460][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.462][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.463][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 08:53:34.463][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 08:53:34.463][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 08:53:34.463][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 08:53:34.463][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 08:53:34.465][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:34.468][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:34.470][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:34.471][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:34.473][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:34.474][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:34.476][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.479][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.481][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:34.482][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:34.483][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.484][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.485][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-10 08:53:34.487][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.488][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 08:53:34.489][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.490][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:34.491][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.492][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.493][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.494][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.495][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 08:53:34.496][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:34.497][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.498][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-10 08:53:34.499][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:34.500][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.502][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.517][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 08:53:34.517][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 08:53:34.517][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 08:53:34.517][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 08:53:34.517][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 08:53:34.519][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:34.521][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:34.523][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:34.523][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:34.524][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:34.525][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:34.526][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.527][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.529][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:34.530][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:34.531][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.532][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.533][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-10 08:53:34.535][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.536][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-10 08:53:34.537][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.538][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:34.539][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.540][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.540][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.541][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.542][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 08:53:34.543][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:34.544][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.545][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-10 08:53:34.547][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:34.548][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.549][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.550][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.551][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:34.551][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:34.552][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:34.553][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:34.554][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:34.556][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:34.557][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.558][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.559][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:34.560][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:34.561][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.562][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.563][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-10 08:53:34.564][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.565][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 08:53:34.566][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.567][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:34.568][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.569][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.570][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.571][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.571][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 08:53:34.572][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:34.573][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.574][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-10 08:53:34.575][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:34.576][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.576][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.577][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.578][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:34.579][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:34.580][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:34.580][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:34.581][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:34.582][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:34.583][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.584][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.584][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:34.585][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:34.586][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.587][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.588][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 08:53:34.589][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.644][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[2024-06-10 08:53:34.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.667][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-10 08:53:34.669][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-10 08:53:34.670][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-10 08:53:34.671][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-10 08:53:34.672][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-10 08:53:34.674][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-10 08:53:34.675][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-10 08:53:34.677][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-10 08:53:34.679][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-10 08:53:34.680][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-10 08:53:34.682][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 08:53:34.683][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-10 08:53:34.685][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-10 08:53:34.686][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-10 08:53:34.687][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-10 08:53:34.689][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-10 08:53:34.690][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-10 08:53:34.691][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-10 08:53:34.692][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-10 08:53:34.694][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-10 08:53:34.695][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-10 08:53:34.696][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-10 08:53:34.697][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-10 08:53:34.699][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-10 08:53:34.700][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-10 08:53:34.701][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-10 08:53:34.703][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-10 08:53:34.704][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-10 08:53:34.706][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-10 08:53:34.708][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-10 08:53:34.710][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-10 08:53:34.711][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-10 08:53:34.713][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-10 08:53:34.714][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-10 08:53:34.716][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-10 08:53:34.718][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-10 08:53:34.719][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-10 08:53:34.721][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-10 08:53:34.723][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-10 08:53:34.724][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-10 08:53:34.726][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-10 08:53:34.728][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-10 08:53:34.744][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-10 08:53:34.747][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-10 08:53:34.750][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-10 08:53:34.752][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-10 08:53:34.754][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-10 08:53:34.755][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-10 08:53:34.757][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-10 08:53:34.758][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-10 08:53:34.760][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-10 08:53:34.761][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-10 08:53:34.763][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-10 08:53:34.765][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-10 08:53:34.766][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-10 08:53:34.768][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-10 08:53:34.770][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-10 08:53:34.771][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-10 08:53:34.773][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-10 08:53:34.775][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-10 08:53:34.777][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-10 08:53:34.779][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-10 08:53:34.780][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-10 08:53:34.782][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-10 08:53:34.784][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-10 08:53:34.785][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-10 08:53:34.787][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-10 08:53:34.788][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-10 08:53:34.790][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-10 08:53:34.791][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-10 08:53:34.793][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-10 08:53:34.795][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-10 08:53:34.796][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-10 08:53:34.798][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-10 08:53:34.800][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-10 08:53:34.802][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-10 08:53:34.804][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-10 08:53:34.806][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-10 08:53:34.809][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-10 08:53:34.811][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-10 08:53:34.814][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-10 08:53:34.816][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-10 08:53:34.817][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-10 08:53:34.819][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-10 08:53:34.821][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-10 08:53:34.823][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 08:53:34.824][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.825][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.836][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[2024-06-10 08:53:34.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.847][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[2024-06-10 08:53:34.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.858][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[2024-06-10 08:53:34.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.890][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[2024-06-10 08:53:34.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:34.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:34.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:34.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:34.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:34.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:34.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:34.948][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-06-10 08:53:34.949][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:34.952][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.953][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.954][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.955][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:34.955][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.956][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-06-10 08:53:34.957][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.958][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.959][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-10 08:53:34.960][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:34.961][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.962][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-06-10 08:53:34.963][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-06-10 08:53:34.964][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-06-10 08:53:34.965][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:34.966][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 08:53:34.966][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-06-10 08:53:34.966][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-06-10 08:53:34.967][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-10 08:53:34.968][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:34.970][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:34.971][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:34.972][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:34.973][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:34.974][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:34.975][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-10 08:53:34.975][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-06-10 08:53:34.976][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:34.977][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:34.978][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:34.979][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:34.981][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-06-10 08:53:34.983][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-10 08:53:34.985][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-10 08:53:34.986][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 08:53:35.003][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-10 08:53:35.009][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:35.010][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-06-10 08:53:35.012][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:35.013][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-10 08:53:35.015][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:35.016][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:35.017][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-06-10 08:53:35.018][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-06-10 08:53:35.020][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-10 08:53:35.020][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-06-10 08:53:35.021][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:35.021][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:35.022][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-06-10 08:53:35.023][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-06-10 08:53:35.024][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:35.025][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-10 08:53:35.026][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:35.027][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:35.029][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-10 08:53:35.030][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:35.031][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-06-10 08:53:35.032][biodb::testThat]
biodb.INFO [2024-06-10 08:53:35.033][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-06-10 08:53:35.034][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:35.035][biodb::testThat]
biodb.DEBUG[2024-06-10 08:53:35.040][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:35.041][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:35.043][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-10 08:53:35.044][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:35.045][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-10 08:53:35.047][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-10 08:53:35.048][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-10 08:53:35.050][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-10 08:53:35.051][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-10 08:53:35.055][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-06-10 08:53:35.062][biodb::testThat]
biodb.INFO [2024-06-10 08:53:35.063][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-06-10 08:53:35.064][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:35.065][biodb::testThat]
biodb.DEBUG[2024-06-10 08:53:35.067][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-06-10 08:53:35.068][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-10 08:53:35.070][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:35.072][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-10 08:53:35.074][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-06-10 08:53:35.076][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 08:53:35.080][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-06-10 08:53:35.083][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 08:53:35.085][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-10 08:53:35.088][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-10 08:53:35.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:35.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:35.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:35.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:35.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:35.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:35.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 08:53:35.116][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.117][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.122][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.131][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:35.132][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:35.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.136][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.138][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:35.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:35.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.145][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:35.147][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:35.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.150][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.153][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:35.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:35.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.160][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:35.163][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:35.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.170][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.199][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:35.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:35.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.212][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:35.215][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:35.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.218][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:35.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:35.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.229][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:35.232][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:35.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.235][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:35.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:35.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.248][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:35.250][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:35.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.254][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.259][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:35.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:35.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.268][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:35.269][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:35.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.274][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.275][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:35.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:35.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.290][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:35.296][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:35.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.298][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.299][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:35.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:35.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.304][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:35.305][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:35.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.306][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.307][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:35.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:35.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.311][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:35.312][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:35.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.314][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.315][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:35.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:35.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.319][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:35.320][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:35.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.322][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.323][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:35.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:35.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.327][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.329][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.331][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.338][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:35.340][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:35.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.344][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:35.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:35.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.356][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:35.357][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:35.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.361][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:35.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:35.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.373][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:35.375][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:35.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.378][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.380][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:35.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:35.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.390][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:35.391][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:35.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.419][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.422][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:35.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:35.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.436][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-10 08:53:35.439][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:35.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.441][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.446][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-10 08:53:35.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:35.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.471][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:35.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:35.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.476][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:35.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:35.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.481][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:35.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:35.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.484][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:35.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:35.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.487][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:35.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:35.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.491][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:35.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:35.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:35.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:35.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:35.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:35.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:35.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:35.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:35.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:35.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:35.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:35.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:35.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:35.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.547][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:35.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:35.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.554][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:35.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:35.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.562][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:35.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:35.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.569][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:35.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:35.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.576][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:35.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:35.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.583][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:35.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:35.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.589][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:35.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:35.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.596][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:35.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:35.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.621][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:35.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:35.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.630][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:35.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:35.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.637][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:35.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:35.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.642][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:35.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:35.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.647][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:35.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:35.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.654][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:35.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:35.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.658][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:35.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:35.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:35.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:35.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:35.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:35.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.696][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:35.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:35.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.707][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.718][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:35.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:35.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.721][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:35.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:35.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.726][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:35.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:35.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:35.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:35.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:35.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:35.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:35.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:35.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:35.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:35.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.745][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:35.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:35.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.749][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:35.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:35.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.753][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:35.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:35.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.757][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:35.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:35.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.762][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:35.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:35.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.767][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:35.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:35.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.771][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:35.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:35.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.791][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:35.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:35.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.795][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:35.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:35.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.799][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:35.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:35.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.803][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:35.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:35.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.808][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-10 08:53:35.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.825][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-10 08:53:35.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:35.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:35.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:35.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.835][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:35.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:35.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:35.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:35.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.843][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:35.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:35.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.849][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:35.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:35.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.853][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:35.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:35.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.857][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:35.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:35.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.866][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:35.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:35.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:35.897][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-06-10 08:53:35.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:35.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:35.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:35.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:35.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-10 08:53:35.936][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-10 08:53:35.938][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-06-10 08:53:35.939][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-06-10 08:53:35.941][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-10 08:53:35.942][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:35.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:35.944][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:35.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:35.945][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:35.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-10 08:53:35.952][biodb::testContext]
biodb.INFO [2024-06-10 08:53:35.953][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 08:53:35.954][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-06-10 08:53:35.955][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-10 08:53:35.956][biodb::testContext]
biodb.INFO [2024-06-10 08:53:35.962][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-10 08:53:35.964][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-10 08:53:35.969][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 08:53:35.970][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-10 08:53:35.971][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-10 08:53:35.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:35.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:35.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:35.975][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-10 08:53:35.976][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-10 08:53:35.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:35.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:35.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:35.982][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-10 08:53:35.983][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-10 08:53:35.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:35.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:35.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:35.990][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-10 08:53:35.993][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-10 08:53:35.995][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-10 08:53:35.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:35.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.002][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-10 08:53:36.003][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-10 08:53:36.005][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-10 08:53:36.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.012][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-10 08:53:36.014][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-10 08:53:36.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.022][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-10 08:53:36.023][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-10 08:53:36.025][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-10 08:53:36.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.032][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-10 08:53:36.034][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-10 08:53:36.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.040][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-10 08:53:36.041][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-10 08:53:36.044][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-10 08:53:36.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.049][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-10 08:53:36.050][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-10 08:53:36.052][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-10 08:53:36.052][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-10 08:53:36.055][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-10 08:53:36.056][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-10 08:53:36.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.063][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-10 08:53:36.064][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-10 08:53:36.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.070][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-10 08:53:36.074][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-10 08:53:36.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.080][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-10 08:53:36.082][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-10 08:53:36.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.121][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-10 08:53:36.124][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-10 08:53:36.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.130][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-10 08:53:36.135][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-10 08:53:36.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.141][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-10 08:53:36.142][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-10 08:53:36.194][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-10 08:53:36.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.206][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-10 08:53:36.208][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-10 08:53:36.209][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-10 08:53:36.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.220][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[2024-06-10 08:53:36.221][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-10 08:53:36.228][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.230][self$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[2024-06-10 08:53:36.233][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.234][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:36.235][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.236][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.237][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.238][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.239][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 08:53:36.243][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:36.245][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.246][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-10 08:53:36.247][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:36.249][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.250][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.251][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 08:53:36.251][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 08:53:36.251][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 08:53:36.251][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 08:53:36.251][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 08:53:36.255][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:36.257][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:36.258][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:36.259][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:36.261][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:36.262][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:36.263][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.264][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.266][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:36.267][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:36.268][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.269][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.272][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-10 08:53:36.275][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.280][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 08:53:36.281][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.282][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:36.283][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.288][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.289][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.290][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.293][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 08:53:36.294][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:36.295][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.300][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-10 08:53:36.302][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:36.303][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.303][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.308][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 08:53:36.308][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-10 08:53:36.308][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-10 08:53:36.308][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-10 08:53:36.308][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-10 08:53:36.310][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:36.310][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:36.311][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:36.312][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:36.317][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:36.317][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:36.318][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.319][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.326][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:36.327][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:36.328][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.329][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.332][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-10 08:53:36.334][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.339][self$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[2024-06-10 08:53:36.341][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.342][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:36.343][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.347][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.348][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.349][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.354][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-10 08:53:36.355][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:36.356][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.357][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-10 08:53:36.361][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:36.362][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.363][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.368][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.369][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:36.370][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:36.371][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:36.401][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:36.407][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:36.409][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:36.415][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.416][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.417][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:36.422][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:36.424][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.424][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.426][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-10 08:53:36.430][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.432][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-10 08:53:36.432][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.436][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:36.437][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.438][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.438][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.444][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.445][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-10 08:53:36.446][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:36.447][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.452][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-10 08:53:36.453][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:36.454][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.460][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.461][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.462][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-10 08:53:36.463][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:36.468][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:36.469][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:36.470][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:36.471][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:36.476][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.478][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.479][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:36.479][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:36.485][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.486][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.487][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 08:53:36.489][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.490][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[2024-06-10 08:53:36.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.565][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[2024-06-10 08:53:36.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.644][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[2024-06-10 08:53:36.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.674][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[2024-06-10 08:53:36.675][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-10 08:53:36.679][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-10 08:53:36.680][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-10 08:53:36.686][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-10 08:53:36.688][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-10 08:53:36.690][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-10 08:53:36.692][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-10 08:53:36.694][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-10 08:53:36.699][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-10 08:53:36.701][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-10 08:53:36.703][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 08:53:36.705][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-10 08:53:36.709][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-10 08:53:36.711][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-10 08:53:36.713][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-10 08:53:36.715][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-10 08:53:36.717][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-10 08:53:36.721][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-10 08:53:36.722][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-10 08:53:36.726][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-10 08:53:36.727][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-10 08:53:36.730][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-10 08:53:36.732][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-10 08:53:36.733][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-10 08:53:36.737][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-10 08:53:36.738][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-10 08:53:36.742][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-10 08:53:36.744][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-10 08:53:36.745][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-10 08:53:36.747][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-10 08:53:36.748][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-10 08:53:36.751][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-10 08:53:36.753][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-10 08:53:36.755][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-10 08:53:36.757][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-10 08:53:36.758][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-10 08:53:36.759][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-10 08:53:36.760][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-10 08:53:36.761][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-10 08:53:36.763][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-10 08:53:36.764][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-10 08:53:36.766][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-10 08:53:36.767][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-10 08:53:36.769][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-10 08:53:36.771][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-10 08:53:36.772][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-10 08:53:36.773][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-10 08:53:36.775][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-10 08:53:36.776][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-10 08:53:36.777][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-10 08:53:36.778][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-10 08:53:36.779][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-10 08:53:36.780][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-10 08:53:36.781][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-10 08:53:36.783][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-10 08:53:36.784][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-10 08:53:36.785][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-10 08:53:36.786][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-10 08:53:36.787][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-10 08:53:36.789][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-10 08:53:36.804][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-10 08:53:36.807][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-10 08:53:36.809][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-10 08:53:36.810][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-10 08:53:36.811][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-10 08:53:36.812][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-10 08:53:36.813][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-10 08:53:36.814][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-10 08:53:36.815][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-10 08:53:36.817][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-10 08:53:36.818][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-10 08:53:36.819][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-10 08:53:36.820][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-10 08:53:36.821][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-10 08:53:36.822][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-10 08:53:36.823][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-10 08:53:36.824][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-10 08:53:36.826][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-10 08:53:36.827][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-10 08:53:36.829][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-10 08:53:36.830][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-10 08:53:36.831][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-10 08:53:36.832][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-10 08:53:36.834][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-10 08:53:36.836][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-10 08:53:36.837][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-10 08:53:36.838][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.839][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.863][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[2024-06-10 08:53:36.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.877][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[2024-06-10 08:53:36.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.882][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[2024-06-10 08:53:36.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.932][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[2024-06-10 08:53:36.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-10 08:53:36.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:36.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:36.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:36.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:36.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:36.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:36.939][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-06-10 08:53:36.941][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:36.943][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.943][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.944][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.945][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-10 08:53:36.946][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.946][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-06-10 08:53:36.947][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.948][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.949][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-10 08:53:36.950][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-10 08:53:36.951][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.951][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-06-10 08:53:36.952][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-06-10 08:53:36.953][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-06-10 08:53:36.954][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-10 08:53:36.955][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-10 08:53:36.955][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-06-10 08:53:36.955][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-06-10 08:53:36.956][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-10 08:53:36.957][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:36.958][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:36.958][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-10 08:53:36.959][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-10 08:53:36.960][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-10 08:53:36.961][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-10 08:53:36.962][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-10 08:53:36.962][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-06-10 08:53:36.962][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:36.963][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:36.964][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-10 08:53:36.965][self$setPropertyValue]
biodb.DEBUG[2024-06-10 08:53:36.966][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-06-10 08:53:36.967][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-10 08:53:36.969][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-10 08:53:36.970][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-10 08:53:36.972][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-10 08:53:36.976][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:36.977][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-06-10 08:53:36.978][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:36.980][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-10 08:53:36.981][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:36.982][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:36.983][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-06-10 08:53:36.984][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-06-10 08:53:36.985][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-10 08:53:36.985][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-06-10 08:53:36.986][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-10 08:53:36.987][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-10 08:53:36.988][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-06-10 08:53:36.989][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-06-10 08:53:37.003][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-10 08:53:37.006][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-10 08:53:37.008][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:37.009][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:37.011][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-10 08:53:37.012][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-10 08:53:37.013][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-06-10 08:53:37.015][biodb::testThat]
biodb.INFO [2024-06-10 08:53:37.016][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2024-06-10 08:53:37.017][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-10 08:53:37.017][biodb::testThat]
biodb.DEBUG[2024-06-10 08:53:37.020][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-10 08:53:37.021][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-06-10 08:53:37.022][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-06-10 08:53:37.026][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:37.027][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:37.029][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-10 08:53:37.031][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:37.032][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-10 08:53:37.033][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-10 08:53:37.035][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-10 08:53:37.036][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-10 08:53:37.037][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-10 08:53:37.038][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-10 08:53:37.039][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-06-10 08:53:37.041][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-06-10 08:53:37.042][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-10 08:53:37.043][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:37.045][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-10 08:53:37.047][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-06-10 08:53:37.048][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 08:53:37.050][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-06-10 08:53:37.051][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 08:53:37.053][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-10 08:53:37.054][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-10 08:53:37.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:37.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:37.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:37.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:37.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:37.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:37.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 08:53:37.071][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.073][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.075][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.081][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.082][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.084][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.086][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.091][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.092][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.094][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.095][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.099][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.100][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.101][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.102][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.103][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.108][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.110][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.116][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.117][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.118][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.140][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.141][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.143][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.144][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.148][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.149][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.151][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.152][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.156][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.157][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.159][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.160][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.164][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.165][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.167][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.168][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.171][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:37.172][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:37.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.174][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.175][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:37.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:37.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.179][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:37.180][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:37.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.182][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:37.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:37.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.186][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.187][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.189][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.190][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.194][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.195][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.196][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.201][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.202][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.203][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.208][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.209][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.210][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.211][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.215][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:37.216][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:37.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.217][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.218][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:37.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:37.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.222][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-10 08:53:37.223][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.225][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.226][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-10 08:53:37.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.258][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.262][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.265][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.269][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.272][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.275][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.301][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.305][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.309][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.313][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.317][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.320][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.324][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.327][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.331][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.335][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.338][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.368][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.374][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:37.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:37.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.379][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:37.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:37.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.382][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:37.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:37.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.386][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:37.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:37.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:37.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:37.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:37.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:37.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.408][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.411][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.415][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.433][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.436][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.440][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.444][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.447][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.451][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.455][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.459][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.463][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:37.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:37.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.481][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:37.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:37.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.488][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:37.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:37.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.494][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-10 08:53:37.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.510][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-10 08:53:37.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.515][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.519][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.523][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.526][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.534][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:37.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:37.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.538][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:37.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:37.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.545][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:37.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:37.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:37.569][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-06-10 08:53:37.570][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.575][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.579][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.583][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:37.604][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-10 08:53:37.606][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-10 08:53:37.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:37.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:37.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:37.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:37.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:37.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:37.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:37.626][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-06-10 08:53:37.627][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-10 08:53:37.630][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:37.632][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-10 08:53:37.634][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-06-10 08:53:37.636][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-10 08:53:37.639][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-06-10 08:53:37.641][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-10 08:53:37.643][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-10 08:53:37.645][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-10 08:53:37.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:37.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:37.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:37.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:37.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:37.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:37.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 08:53:37.663][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.665][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.666][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.670][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.671][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.672][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.674][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:37.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.677][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.678][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.679][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.681][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.684][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.685][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.687][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.688][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.694][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.699][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.700][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.701][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.706][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.707][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.708][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.709][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:37.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.713][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.714][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.720][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.722][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:37.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.731][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.735][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.766][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.773][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.787][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.794][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.799][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.801][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.807][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:37.813][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:37.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.816][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:37.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:37.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.820][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:37.821][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:37.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.824][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:37.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:37.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.830][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.831][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.834][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.835][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:37.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.839][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.840][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.842][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:37.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.847][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.848][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.850][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.852][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:37.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:37.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.856][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.857][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.859][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.860][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.864][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:37.865][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:37.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.867][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.868][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:37.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:37.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.872][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-10 08:53:37.873][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.874][ef$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.876][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-10 08:53:37.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:37.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:37.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.890][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.894][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.897][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-10 08:53:37.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.901][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.920][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.926][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-10 08:53:37.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-10 08:53:37.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-10 08:53:37.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.951][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.954][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.958][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-10 08:53:37.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.962][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.965][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.969][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-10 08:53:37.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.972][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.976][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.980][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-10 08:53:37.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.984][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.989][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.992][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:37.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:37.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.995][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:37.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:37.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:37.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:37.998][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:37.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:38.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.002][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-10 08:53:38.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-10 08:53:38.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:38.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:38.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:38.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:38.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-10 08:53:38.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-10 08:53:38.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.052][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:38.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:38.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.056][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:38.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:38.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.060][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:38.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-10 08:53:38.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:38.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:38.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:38.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:38.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:38.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-10 08:53:38.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:38.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:38.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.080][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:38.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:38.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:38.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:38.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.088][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:38.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:38.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.092][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:38.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:38.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.096][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:38.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-10 08:53:38.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.099][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:38.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:38.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.103][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:38.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:38.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.107][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:38.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-10 08:53:38.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.111][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:38.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:38.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.114][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:38.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:38.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.118][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-10 08:53:38.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-10 08:53:38.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.122][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-10 08:53:38.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.128][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.136][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-10 08:53:38.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-10 08:53:38.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:38.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:38.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:38.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:38.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.174][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:38.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:38.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.183][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:38.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:38.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.188][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-10 08:53:38.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-10 08:53:38.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.194][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:38.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:38.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.200][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:38.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:38.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:38.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:38.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.212][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:38.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-10 08:53:38.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:38.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:38.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:38.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:38.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:38.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:38.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:38.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:38.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:38.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:38.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-10 08:53:38.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-10 08:53:38.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:38.248][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-06-10 08:53:38.249][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.252][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.256][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.260][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:38.263][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-10 08:53:38.264][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-06-10 08:53:38.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:38.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:38.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:38.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:38.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:38.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:38.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:38.283][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-10 08:53:38.284][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-06-10 08:53:38.285][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-06-10 08:53:38.287][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:38.288][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:38.290][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-10 08:53:38.292][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:38.293][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-10 08:53:38.295][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-10 08:53:38.311][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-10 08:53:38.313][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-10 08:53:38.315][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-10 08:53:38.317][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-10 08:53:38.319][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-10 08:53:38.323][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.329][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.333][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.338][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.344][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.350][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.355][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:38.359][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-10 08:53:38.360][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-10 08:53:38.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:38.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:38.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:38.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:38.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:38.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:38.373][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.TRACE[2024-06-10 08:53:38.374][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.378][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.383][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.387][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.391][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.394][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.397][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:38.401][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-06-10 08:53:38.402][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-10 08:53:38.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:38.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:38.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:38.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:38.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:38.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:38.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-10 08:53:38.418][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-10 08:53:38.420][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-06-10 08:53:38.422][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-06-10 08:53:38.425][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:38.426][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:38.428][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-10 08:53:38.430][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-10 08:53:38.431][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-10 08:53:38.433][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-10 08:53:38.434][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-10 08:53:38.435][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-10 08:53:38.436][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-10 08:53:38.437][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-10 08:53:38.439][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-10 08:53:38.456][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.464][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.470][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.474][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.479][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.483][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.488][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:38.493][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-06-10 08:53:38.494][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-06-10 08:53:38.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:38.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:38.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:38.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:38.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:38.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:38.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-10 08:53:38.508][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.512][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.515][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.519][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.522][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.526][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-10 08:53:38.530][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-10 08:53:38.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-10 08:53:38.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-10 08:53:38.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-10 08:53:38.533][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-10 08:53:38.534][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-10 08:53:38.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-10 08:53:38.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:38.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:38.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:38.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:38.544][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:38.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-10 08:53:38.553][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-10 08:53:38.554][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-06-10 08:53:38.555][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-06-10 08:53:38.556][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-10 08:53:38.557][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-10 08:53:38.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-10 08:53:38.558][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-10 08:53:38.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-10 08:53:38.560][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-10 08:53:38.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
 10.205   0.882  18.314

CHECK results for biodbHmdb on kjohnson3

Summary

Command output

Installation output

Tests output

Example timings