Pierrick Roger
| Snapshot Date: 2024-08-20 14:00 -0400 (Tue, 20 Aug 2024) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: devel |
| git_last_commit: c3d59a4 |
| git_last_commit_date: 2024-04-30 11:39:05 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-08-21 11:45 -0400 (Wed, 21 Aug 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
| kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4421 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4414 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 202/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.11.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | ERROR | OK | |||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: biodbHmdb |
| Version: 1.11.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbHmdb_1.11.0.tar.gz |
| StartedAt: 2024-08-21 02:55:22 -0000 (Wed, 21 Aug 2024) |
| EndedAt: 2024-08-21 02:59:19 -0000 (Wed, 21 Aug 2024) |
| EllapsedTime: 237.5 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 2 |
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### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbHmdb_1.11.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
gcc (GCC) 12.2.1 20220819 (openEuler 12.2.1-14)
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.11.0’
* 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 ... WARNING
Found the following significant warnings:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
See ‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++ (GCC) 10.3.1’
* checking installed package size ... NOTE
installed size is 9.2Mb
sub-directories of 1Mb or more:
libs 8.6Mb
* 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 loading without being on the library search path ... 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: 2 WARNINGs, 3 NOTEs
See
‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
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###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 10.3.1’
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c EntryMaker.cpp -o EntryMaker.o
In file included from EntryMaker.cpp:1:
EntryMaker.hpp: In constructor ‘EntryMaker::EntryMaker()’:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
23 | TagDetector accession_tag;
| ^~~~~~~~~~~~~
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
22 | bool closed;
| ^~~~~~
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
5 | EntryMaker::EntryMaker() :
| ^~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-100-TagDetector.cpp -o test-100-TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.4.1/lib -L/usr/local/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 -L/home/biocbuild/R/R-4.4.1/lib -lR
installing to /home/biocbuild/R/R-4.4.1/site-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)
biodbHmdb.Rcheck/tests/testthat.Rout
R version 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu
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 [2024-08-21 02:58:14.386][biodb::testContext]
biodb.INFO [2024-08-21 02:58:14.388][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-21 02:58:14.390][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-08-21 02:58:14.391][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-21 02:58:14.392][biodb::testContext]
biodb.INFO [2024-08-21 02:58:14.395][biodb::testThat]
biodb.INFO [2024-08-21 02:58:14.396][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-08-21 02:58:14.398][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:58:14.399][biodb::testThat]
biodb.INFO [2024-08-21 02:58:14.542][biodb::testContext]
biodb.INFO [2024-08-21 02:58:14.543][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-21 02:58:14.545][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-08-21 02:58:14.546][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-21 02:58:14.547][biodb::testContext]
biodb.INFO [2024-08-21 02:58:14.561][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-08-21 02:58:14.575][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-08-21 02:58:14.586][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-21 02:58:14.587][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-08-21 02:58:14.589][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-08-21 02:58:14.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.594][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-08-21 02:58:14.620][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-08-21 02:58:14.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.626][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-08-21 02:58:14.627][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-08-21 02:58:14.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.632][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-08-21 02:58:14.633][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-08-21 02:58:14.635][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-08-21 02:58:14.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.640][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-08-21 02:58:14.641][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-08-21 02:58:14.643][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-08-21 02:58:14.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.648][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-08-21 02:58:14.649][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-08-21 02:58:14.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.653][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[2024-08-21 02:58:14.654][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-08-21 02:58:14.655][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-08-21 02:58:14.657][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-08-21 02:58:14.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.662][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-08-21 02:58:14.663][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-08-21 02:58:14.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.668][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-08-21 02:58:14.670][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-08-21 02:58:14.671][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-08-21 02:58:14.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.676][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-08-21 02:58:14.677][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-08-21 02:58:14.679][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-08-21 02:58:14.680][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-08-21 02:58:14.682][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-08-21 02:58:14.683][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-08-21 02:58:14.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.688][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-08-21 02:58:14.690][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-08-21 02:58:14.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.695][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-08-21 02:58:14.696][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-08-21 02:58:14.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.701][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-08-21 02:58:14.703][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-08-21 02:58:14.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.708][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-08-21 02:58:14.710][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-08-21 02:58:14.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.715][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-08-21 02:58:14.716][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-08-21 02:58:14.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.722][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-08-21 02:58:14.723][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-08-21 02:58:14.735][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-08-21 02:58:14.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.741][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-08-21 02:58:14.742][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-08-21 02:58:14.743][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-08-21 02:58:14.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:14.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.752][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-08-21 02:58:14.799][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.822][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-08-21 02:58:14.824][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.834][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:58:14.836][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.837][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.838][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.840][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.841][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-21 02:58:14.842][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:58:14.844][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.845][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-08-21 02:58:14.846][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:58:14.848][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.849][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.850][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-21 02:58:14.850][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-21 02:58:14.850][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-21 02:58:14.850][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-21 02:58:14.850][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-21 02:58:14.852][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:58:14.853][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:58:14.855][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:58:14.856][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:58:14.857][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:58:14.859][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:58:14.860][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.862][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.863][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:58:14.864][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:58:14.866][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.867][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.869][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-08-21 02:58:14.871][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.873][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-08-21 02:58:14.874][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.875][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:58:14.877][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.878][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.880][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.881][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.882][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-21 02:58:14.884][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:58:14.885][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.887][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-08-21 02:58:14.888][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:58:14.889][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.891][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.892][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-21 02:58:14.892][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-21 02:58:14.892][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-21 02:58:14.892][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-21 02:58:14.892][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-21 02:58:14.894][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:58:14.895][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:58:14.896][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:58:14.897][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:58:14.899][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:58:14.900][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:58:14.901][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.903][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.904][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:58:14.905][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:58:14.907][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.908][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.910][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-08-21 02:58:14.912][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.914][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-08-21 02:58:14.915][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.916][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:58:14.918][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.919][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.920][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.922][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.923][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-21 02:58:14.925][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:58:14.926][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.927][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-08-21 02:58:14.929][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:58:14.930][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.932][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.933][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.934][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:58:14.936][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:58:14.937][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:58:14.938][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:58:14.940][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:58:14.941][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:58:14.942][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.944][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.945][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:58:14.947][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:58:14.948][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.949][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.951][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-08-21 02:58:14.953][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.955][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-08-21 02:58:14.956][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.958][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:58:14.959][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.960][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.962][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.963][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.965][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-21 02:58:14.966][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:58:14.967][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.969][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-08-21 02:58:14.970][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:58:14.972][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.973][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:14.974][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.976][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:58:14.977][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:58:14.978][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:58:14.980][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:58:14.981][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:58:14.982][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:58:14.984][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:58:14.985][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.986][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:58:14.988][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:58:14.989][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:14.990][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:14.996][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-21 02:58:14.997][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:14.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:14.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.054][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[2024-08-21 02:58:15.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.067][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.DEBUG[2024-08-21 02:58:15.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.110][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.DEBUG[2024-08-21 02:58:15.111][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-08-21 02:58:15.117][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-08-21 02:58:15.120][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-08-21 02:58:15.121][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-08-21 02:58:15.123][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-08-21 02:58:15.125][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-21 02:58:15.127][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-08-21 02:58:15.129][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-08-21 02:58:15.131][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-08-21 02:58:15.133][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-21 02:58:15.135][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-21 02:58:15.137][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-08-21 02:58:15.139][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-08-21 02:58:15.141][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-08-21 02:58:15.143][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-08-21 02:58:15.145][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-21 02:58:15.147][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-08-21 02:58:15.149][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-08-21 02:58:15.150][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-08-21 02:58:15.152][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-08-21 02:58:15.154][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-08-21 02:58:15.156][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-08-21 02:58:15.158][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-08-21 02:58:15.160][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-08-21 02:58:15.162][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-08-21 02:58:15.164][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-08-21 02:58:15.166][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-08-21 02:58:15.168][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-08-21 02:58:15.170][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-08-21 02:58:15.172][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-08-21 02:58:15.174][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-08-21 02:58:15.176][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-08-21 02:58:15.178][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-08-21 02:58:15.180][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-08-21 02:58:15.182][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-08-21 02:58:15.184][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-08-21 02:58:15.186][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-08-21 02:58:15.188][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-08-21 02:58:15.190][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-08-21 02:58:15.192][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-08-21 02:58:15.194][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-08-21 02:58:15.196][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-08-21 02:58:15.198][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-08-21 02:58:15.200][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-08-21 02:58:15.202][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-08-21 02:58:15.204][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-08-21 02:58:15.205][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-08-21 02:58:15.207][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-08-21 02:58:15.209][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-08-21 02:58:15.211][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-08-21 02:58:15.213][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-08-21 02:58:15.215][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-08-21 02:58:15.217][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-08-21 02:58:15.219][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-08-21 02:58:15.221][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-08-21 02:58:15.223][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-08-21 02:58:15.225][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-08-21 02:58:15.227][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-08-21 02:58:15.229][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-08-21 02:58:15.231][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-08-21 02:58:15.233][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-08-21 02:58:15.235][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-08-21 02:58:15.237][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-08-21 02:58:15.239][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-08-21 02:58:15.240][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-08-21 02:58:15.242][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-08-21 02:58:15.244][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-08-21 02:58:15.246][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-08-21 02:58:15.248][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-08-21 02:58:15.250][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-08-21 02:58:15.252][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-08-21 02:58:15.254][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-08-21 02:58:15.256][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-08-21 02:58:15.258][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-08-21 02:58:15.260][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-08-21 02:58:15.262][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-08-21 02:58:15.264][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-08-21 02:58:15.266][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-08-21 02:58:15.268][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-08-21 02:58:15.270][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-08-21 02:58:15.272][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-08-21 02:58:15.274][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-08-21 02:58:15.276][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-08-21 02:58:15.284][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-08-21 02:58:15.286][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-08-21 02:58:15.291][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-21 02:58:15.292][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.294][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.353][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[2024-08-21 02:58:15.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:58:15.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:58:15.462][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-08-21 02:58:15.477][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:58:15.480][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:15.481][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-08-21 02:58:15.482][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:15.484][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:58:15.485][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:15.487][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-08-21 02:58:15.488][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:15.489][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:58:15.491][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-08-21 02:58:15.492][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:58:15.493][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:15.495][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-08-21 02:58:15.496][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-08-21 02:58:15.498][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-08-21 02:58:15.499][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-08-21 02:58:15.501][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-21 02:58:15.501][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-08-21 02:58:15.501][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-08-21 02:58:15.502][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-08-21 02:58:15.503][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:58:15.505][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:58:15.506][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:58:15.507][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:58:15.508][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:58:15.510][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:58:15.511][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-21 02:58:15.511][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-08-21 02:58:15.513][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:58:15.514][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:58:15.515][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-08-21 02:58:15.517][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:58:15.525][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-08-21 02:58:15.528][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-21 02:58:15.530][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-21 02:58:15.532][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-21 02:58:15.534][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-21 02:58:15.564][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:58:15.567][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-08-21 02:58:15.623][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:58:15.630][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-21 02:58:15.638][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:58:15.642][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:58:15.644][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-08-21 02:58:15.646][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-08-21 02:58:15.647][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-21 02:58:15.647][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-08-21 02:58:15.649][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:58:15.650][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:58:15.654][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-08-21 02:58:15.658][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-08-21 02:58:15.660][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:58:15.686][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-21 02:58:15.688][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:58:15.689][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:58:15.692][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-21 02:58:15.694][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:58:15.695][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-08-21 02:58:15.717][biodb::testThat]
biodb.INFO [2024-08-21 02:58:15.718][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-08-21 02:58:15.720][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:58:15.721][biodb::testThat]
biodb.TRACE[2024-08-21 02:58:15.730][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-08-21 02:58:15.732][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-21 02:58:15.737][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-21 02:58:15.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:58:15.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:15.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:15.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:15.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:15.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:15.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-21 02:58:15.793][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:15.795][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:15.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.797][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:15.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:15.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.823][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:15.825][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:15.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.827][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.866][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:15.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:15.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.872][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:15.873][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:15.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.876][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.878][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:15.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:15.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.883][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:15.885][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:15.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.887][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.889][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:15.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:15.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.907][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:15.909][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:15.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.911][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:15.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:15.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.919][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:15.920][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:15.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.923][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:15.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:15.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.930][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:15.932][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:15.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.934][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.936][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:15.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:15.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.942][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:15.943][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:15.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.946][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.948][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:15.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:15.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.953][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:15.955][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:15.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.957][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.959][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:15.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:15.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.965][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:15.966][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:15.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.969][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.971][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:15.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:15.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.976][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:15.978][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:15.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.980][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:15.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:15.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.987][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:15.989][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:15.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.991][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:15.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:15.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:15.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:15.999][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:16.000][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:16.001][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.003][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:16.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:16.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.010][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:16.012][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:16.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.014][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:16.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:16.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.022][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:16.023][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:16.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.026][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:16.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:16.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.033][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:16.034][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:16.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.037][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.038][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:16.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:16.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.044][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:16.045][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:16.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.048][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.050][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:16.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:16.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.055][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-08-21 02:58:16.057][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:16.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.060][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.062][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-08-21 02:58:16.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:16.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:16.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:16.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:16.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:16.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:16.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:16.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.141][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:16.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:16.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.147][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:16.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:16.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.153][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:16.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:16.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.162][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:16.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:16.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.167][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:16.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:16.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.172][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:16.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:16.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:16.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:16.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:16.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:16.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:16.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:16.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:16.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:16.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:16.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:16.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:16.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:16.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.210][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:16.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:16.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:16.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:16.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.226][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:16.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:16.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.232][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:16.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:16.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.237][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:16.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:16.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.242][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:16.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:16.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.248][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:16.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:16.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.253][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:16.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:16.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.258][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:16.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:16.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.270][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:16.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:16.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.279][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:16.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:16.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.289][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:16.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:16.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.296][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:16.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:16.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.302][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:16.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:16.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:16.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:16.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:16.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:16.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:16.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:16.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.343][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:16.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:16.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:16.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:16.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.355][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:16.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:16.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:16.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:16.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.370][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:16.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:16.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.377][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:16.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:16.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.383][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:16.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:16.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:16.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:16.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:16.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:16.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:16.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:16.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.407][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:16.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:16.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.413][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:16.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:16.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:16.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:16.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.425][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:16.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:16.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.431][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:16.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:16.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.437][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:16.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:16.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.615][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:16.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:16.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.630][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:16.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:16.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.636][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:16.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:16.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.642][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:16.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:16.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.648][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:16.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:16.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:16.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:16.691][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:19.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:19.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.474][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-21 02:58:19.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:19.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.481][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:19.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:19.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.489][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:19.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:19.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:19.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:19.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.502][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-21 02:58:19.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:19.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:19.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:19.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:19.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:19.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:19.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:19.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.579][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:19.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:19.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:19.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:19.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.592][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.599][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.611][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:19.656][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-08-21 02:58:19.661][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-21 02:58:19.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-21 02:58:19.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.668][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-21 02:58:19.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-21 02:58:19.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.675][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-08-21 02:58:19.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-08-21 02:58:19.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.681][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-08-21 02:58:19.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-08-21 02:58:19.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.741][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.795][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.801][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.807][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:19.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.857][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.859][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.862][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:19.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:19.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.880][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:19.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:19.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.887][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:19.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:19.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.893][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:19.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:19.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.899][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:19.901][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:19.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.904][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.906][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:19.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:19.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:19.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:19.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:19.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:19.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:19.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:19.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.943][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:19.944][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:19.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.947][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:19.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:19.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.967][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:19.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:19.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.973][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:19.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:19.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.979][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:19.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:19.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.985][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:19.987][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:19.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.990][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:19.991][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:19.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:19.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:19.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.030][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.057][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.063][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.069][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.075][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.077][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.080][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.081][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:20.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:20.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.106][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:20.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:20.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:20.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:20.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.117][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:20.119][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:20.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.122][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:20.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:20.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.141][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:20.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:20.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.147][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:20.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:20.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.153][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:20.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:20.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.159][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:20.161][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:20.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.164][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.165][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:20.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:20.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:20.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:20.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.188][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:20.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:20.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.194][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:20.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:20.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.200][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:20.201][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:20.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.204][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.206][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:20.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:20.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.222][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.228][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.234][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.239][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.241][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.244][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.245][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.287][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.289][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.292][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.311][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.317][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.322][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.329][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.330][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.333][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.335][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.352][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.359][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.365][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.371][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.373][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.375][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.377][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.394][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.401][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.407][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.413][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.415][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.417][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.419][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.436][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:20.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:20.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.443][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:20.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:20.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.449][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:20.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:20.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.455][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:20.457][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:20.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.460][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.462][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:20.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:20.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:20.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:20.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:20.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:20.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.503][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:20.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:20.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.509][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:20.511][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:20.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.514][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:20.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:20.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.533][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.551][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.553][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.556][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.575][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.581][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.587][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.593][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.595][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.597][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.599][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.621][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:20.624][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:20.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.627][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.635][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.636][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:20.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.639][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.647][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.648][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:20.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.652][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.659][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.661][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:20.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.664][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.672][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:20.674][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:20.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.677][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.684][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.686][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:20.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.689][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.697][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.699][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:20.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.702][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.710][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.712][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:20.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.715][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.738][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:20.740][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:20.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.743][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.750][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:20.752][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:20.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.755][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.762][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:20.764][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:20.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.767][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.774][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.776][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:20.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.779][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.786][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.788][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:20.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.791][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.798][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.800][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:20.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.803][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.809][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:20.811][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:20.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.814][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.821][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:20.823][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:20.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.826][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.834][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:20.835][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:20.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.838][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:20.845][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:20.847][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:20.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:20.850][ef$get] fields variable is a list.
biodb.INFO [2024-08-21 02:58:20.861][biodb::testThat]
biodb.INFO [2024-08-21 02:58:20.863][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-08-21 02:58:20.864][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:58:20.866][biodb::testThat]
biodb.DEBUG[2024-08-21 02:58:20.888][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-08-21 02:58:20.897][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2024-08-21 02:58:20.905][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2024-08-21 02:58:20.910][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2024-08-21 02:58:20.912][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2024-08-21 02:58:20.913][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2024-08-21 02:58:20.917][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2024-08-21 02:58:20.919][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-08-21 02:58:20.922][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2024-08-21 02:58:20.924][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-08-21 02:58:20.926][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2024-08-21 02:58:20.929][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker2a3c1e1f9100aemarker".
biodb.TRACE[2024-08-21 02:58:20.931][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2024-08-21 02:58:20.932][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-08-21 02:58:20.934][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-08-21 02:58:20.936][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2024-08-21 02:58:20.938][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2024-08-21 02:58:20.940][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-08-21 02:58:20.941][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2024-08-21 02:58:20.957][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2024-08-21 02:58:20.959][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2024-08-21 02:58:20.960][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2024-08-21 02:58:20.962][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2024-08-21 02:58:20.974][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2024-08-21 02:58:20.976][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-08-21 02:58:20.978][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-08-21 02:58:20.979][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2024-08-21 02:58:20.981][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker2a3c1e6a9c6ccemarker".
biodb.TRACE[2024-08-21 02:58:20.983][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2024-08-21 02:58:20.985][self$addFilesToCache] Done adding files.
biodb.TRACE[2024-08-21 02:58:20.996][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-08-21 02:58:20.998][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-08-21 02:58:21.001][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-08-21 02:58:21.002][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-21 02:58:21.038][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-21 02:58:21.040][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-21 02:58:21.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:58:21.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:58:21.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:58:21.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:58:21.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:58:21.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:58:21.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-21 02:58:21.061][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.063][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.066][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.073][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:21.074][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:21.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.077][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.079][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:21.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:21.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.085][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:21.086][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:21.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.089][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.091][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:21.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:21.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.097][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:21.098][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:21.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.101][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.103][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:21.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:21.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.109][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:21.110][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:21.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.113][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:21.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:21.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.122][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:21.123][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:21.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.126][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:21.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:21.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.134][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:21.136][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:21.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.138][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.140][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:21.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:21.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.146][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:21.148][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:21.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.150][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.152][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:21.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:21.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.158][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:21.160][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:21.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.163][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.165][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:21.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:21.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.170][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:21.172][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:21.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.175][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.177][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:21.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:21.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.183][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:21.184][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:21.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.194][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.196][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:21.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:21.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.202][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:21.203][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:21.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.206][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:21.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:21.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.214][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.215][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.218][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.226][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:21.227][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:21.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.230][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:21.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:21.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.238][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.239][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.242][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.250][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:21.251][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:21.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.254][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.256][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:21.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:21.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.262][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:21.264][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:21.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.267][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.269][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:21.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:21.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.275][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-08-21 02:58:21.277][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:21.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.279][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.282][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-08-21 02:58:21.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:21.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.305][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:21.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:21.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.310][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:21.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:21.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.316][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:58:21.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:58:21.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.322][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:21.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:21.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.329][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:21.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:21.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.335][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:58:21.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:58:21.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:21.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:21.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:21.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:21.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:58:21.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:58:21.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:21.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:21.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:21.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:21.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:21.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:58:21.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.377][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:21.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:21.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.382][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:21.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:21.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.388][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:21.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:58:21.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.402][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:21.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:21.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.408][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:21.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:21.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.414][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:21.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:58:21.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.420][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:21.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:21.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.426][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:21.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:21.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.431][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:21.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:58:21.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.437][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:21.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:21.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.443][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:21.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:21.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.448][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:21.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:21.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.454][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:21.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:21.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.460][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:21.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:21.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:58:21.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:58:21.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:21.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:21.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.477][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:21.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:21.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:58:21.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:58:21.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.488][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.505][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:21.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:21.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.511][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:21.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:21.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.518][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:21.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:58:21.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:21.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:21.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:21.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:21.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:21.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:58:21.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.541][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.547][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.553][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.558][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:21.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:21.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.564][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:21.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:21.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.569][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:21.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:58:21.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.575][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:21.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:21.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.580][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:21.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:21.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.586][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:21.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:21.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.598][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:21.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:21.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.604][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:21.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:21.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.609][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:58:21.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:58:21.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.614][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-21 02:58:21.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.637][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-21 02:58:21.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:58:21.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.644][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.655][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.672][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:21.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:21.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.678][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:21.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:21.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.689][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:21.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:58:21.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:58:21.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:58:21.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:21.727][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-08-21 02:58:21.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-08-21 02:58:21.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-08-21 02:58:21.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-08-21 02:58:21.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-08-21 02:58:21.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-08-21 02:58:21.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-08-21 02:58:21.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-08-21 02:58:21.755][biodb::testThat]
biodb.INFO [2024-08-21 02:58:21.757][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-08-21 02:58:21.758][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:58:21.759][biodb::testThat]
biodb.TRACE[2024-08-21 02:58:21.763][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.765][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.768][ef$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:21.770][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-08-21 02:58:21.814][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.820][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.826][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:21.835][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-08-21 02:58:21.837][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-08-21 02:58:21.838][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-08-21 02:58:21.840][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-08-21 02:58:21.842][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:21.844][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:21.846][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-21 02:58:21.848][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:21.849][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-21 02:58:21.851][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-21 02:58:21.852][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-21 02:58:21.854][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-21 02:58:21.855][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-21 02:58:21.857][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-21 02:58:21.858][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-21 02:58:21.860][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.871][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.877][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:21.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:21.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:21.882][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-21 02:58:21.884][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-21 02:58:21.885][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-08-21 02:58:21.900][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:21.902][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:21.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.904][ef$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:21.906][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-08-21 02:58:21.921][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:21.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:21.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.926][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:21.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:21.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:21.931][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:21.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:21.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:21.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:21.940][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[2024-08-21 02:58:22.025][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-08-21 02:58:22.026][private$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[2024-08-21 02:58:22.028][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-08-21 02:58:22.049][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:22.051][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:22.053][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-21 02:58:22.055][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:22.056][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-21 02:58:22.078][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-21 02:58:22.080][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-21 02:58:22.081][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-21 02:58:22.082][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-21 02:58:22.083][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-21 02:58:22.085][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-21 02:58:22.087][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:22.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:22.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.093][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:22.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:22.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.098][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:22.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:22.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.103][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:58:22.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:58:22.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:22.109][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-21 02:58:22.110][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-21 02:58:22.111][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-08-21 02:58:22.126][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.128][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.130][ef$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:22.139][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-08-21 02:58:22.156][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.162][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.168][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:22.177][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-08-21 02:58:22.179][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-08-21 02:58:22.180][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-08-21 02:58:22.181][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-08-21 02:58:22.184][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:22.186][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:22.188][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-21 02:58:22.190][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:22.191][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-21 02:58:22.193][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-21 02:58:22.194][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-21 02:58:22.196][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-21 02:58:22.197][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-21 02:58:22.198][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-21 02:58:22.200][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-21 02:58:22.202][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.208][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.213][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.219][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:58:22.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:22.224][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-21 02:58:22.226][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-21 02:58:22.227][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-08-21 02:58:22.246][biodb::testThat]
biodb.INFO [2024-08-21 02:58:22.247][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-08-21 02:58:22.249][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:58:22.250][biodb::testThat]
biodb.TRACE[2024-08-21 02:58:22.264][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:22.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:22.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.270][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:22.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:22.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.275][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:22.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:22.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:22.294][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-08-21 02:58:22.295][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-08-21 02:58:22.296][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-08-21 02:58:22.299][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:22.301][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:22.302][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-21 02:58:22.304][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:58:22.306][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-21 02:58:22.307][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-21 02:58:22.309][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-21 02:58:22.310][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-21 02:58:22.311][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-21 02:58:22.313][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-21 02:58:22.314][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-21 02:58:22.316][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:22.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:22.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.322][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:22.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:22.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:22.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:22.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:58:22.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:58:22.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:58:22.346][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-21 02:58:22.347][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-08-21 02:58:22.366][biodb::testThat]
biodb.INFO [2024-08-21 02:58:22.367][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-08-21 02:58:22.369][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:58:22.370][biodb::testThat]
biodb.TRACE[2024-08-21 02:58:22.398][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-21 02:58:22.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-21 02:58:22.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.403][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-21 02:58:22.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-21 02:58:22.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.409][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-08-21 02:58:22.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-08-21 02:58:22.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.414][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-08-21 02:58:22.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-08-21 02:58:22.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.478][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-21 02:58:22.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-21 02:58:22.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.484][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-08-21 02:58:22.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-08-21 02:58:22.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.489][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-08-21 02:58:22.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-08-21 02:58:22.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:58:22.495][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-08-21 02:58:22.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-08-21 02:58:22.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:58:22.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-08-21 02:58:22.515][biodb::testThat]
biodb.INFO [2024-08-21 02:58:22.517][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-08-21 02:58:22.518][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:58:22.519][biodb::testThat]
biodb.INFO [2024-08-21 02:58:22.530][biodb::testThat]
biodb.INFO [2024-08-21 02:58:22.531][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-08-21 02:58:22.532][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:58:22.534][biodb::testThat]
biodb.INFO [2024-08-21 02:58:22.544][biodb::testThat]
biodb.INFO [2024-08-21 02:58:22.546][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-08-21 02:58:22.547][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:58:22.548][biodb::testThat]
biodb.DEBUG[2024-08-21 02:58:22.553][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-08-21 02:58:32.849][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-08-21 02:58:33.590][biodb::testThat]
biodb.INFO [2024-08-21 02:58:33.592][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-08-21 02:58:33.593][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:58:33.595][biodb::testThat]
biodb.DEBUG[2024-08-21 02:59:08.020][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-08-21 02:59:08.726][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:08.728][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:08.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:08.731][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:08.732][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:08.734][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:08.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:08.737][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:08.739][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:08.740][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:08.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:08.743][ef$get] fields variable is a list.
biodb.INFO [2024-08-21 02:59:08.745][biodb::testThat]
biodb.INFO [2024-08-21 02:59:08.747][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-08-21 02:59:08.748][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:59:08.750][biodb::testThat]
biodb.DEBUG[2024-08-21 02:59:08.753][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-08-21 02:59:08.848][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-08-21 02:59:08.851][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:08.853][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-08-21 02:59:08.880][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-08-21 02:59:08.882][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-08-21 02:59:08.883][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-08-21 02:59:08.885][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-21 02:59:08.887][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:08.888][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-21 02:59:08.890][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-21 02:59:08.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:59:08.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:08.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:08.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:08.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:08.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:08.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-21 02:59:08.908][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:08.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:08.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:08.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:08.914][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:08.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:08.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:08.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:08.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:08.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:08.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:08.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:08.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:08.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:08.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:08.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:08.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:08.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:08.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:08.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:08.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:08.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:08.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:08.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:08.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:08.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:08.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:08.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:08.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:08.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:08.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:08.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:59:08.954][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-08-21 02:59:08.955][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-08-21 02:59:09.017][biodb::testThat]
biodb.INFO [2024-08-21 02:59:09.019][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-08-21 02:59:09.020][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:59:09.022][biodb::testThat]
biodb.DEBUG[2024-08-21 02:59:09.035][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-08-21 02:59:09.037][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-08-21 02:59:09.038][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-08-21 02:59:09.040][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:09.042][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-08-21 02:59:09.045][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-08-21 02:59:09.047][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-08-21 02:59:09.048][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-08-21 02:59:09.050][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-21 02:59:09.052][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:09.054][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-21 02:59:09.055][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-21 02:59:09.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:59:09.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:09.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:09.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.071][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.TRACE[2024-08-21 02:59:09.073][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:09.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:09.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:09.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:09.079][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:09.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:09.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:09.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:09.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:09.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:09.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:09.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:09.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:09.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:09.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:09.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:09.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:09.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:09.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:09.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:09.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:09.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:09.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:09.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:09.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:09.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:09.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:09.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:09.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:09.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:09.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:09.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:59:09.121][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-08-21 02:59:09.123][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-08-21 02:59:09.124][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-08-21 02:59:09.142][biodb::testThat]
biodb.INFO [2024-08-21 02:59:09.143][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-08-21 02:59:09.145][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:59:09.146][biodb::testThat]
biodb.INFO [2024-08-21 02:59:09.185][biodb::testThat]
biodb.INFO [2024-08-21 02:59:09.186][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-08-21 02:59:09.188][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:59:09.189][biodb::testThat]
biodb.DEBUG[2024-08-21 02:59:09.193][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:09.195][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:09.197][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-21 02:59:09.199][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:09.201][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-21 02:59:09.203][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-21 02:59:09.204][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-21 02:59:09.206][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-21 02:59:09.207][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-08-21 02:59:09.218][biodb::testThat]
biodb.INFO [2024-08-21 02:59:09.220][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-08-21 02:59:09.221][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:59:09.223][biodb::testThat]
biodb.DEBUG[2024-08-21 02:59:09.226][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:09.228][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:09.230][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-21 02:59:09.233][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:09.234][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-21 02:59:09.236][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-21 02:59:09.238][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-21 02:59:09.239][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-21 02:59:09.240][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-08-21 02:59:09.252][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:09.254][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:09.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:09.256][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:09.258][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:09.259][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:09.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:09.262][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:09.263][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:09.265][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:09.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:09.268][ef$get] fields variable is a list.
biodb.INFO [2024-08-21 02:59:09.269][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-08-21 02:59:09.271][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-08-21 02:59:09.284][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-08-21 02:59:09.286][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-08-21 02:59:09.287][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:09.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:09.290][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.292][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-08-21 02:59:09.303][biodb::testContext]
biodb.INFO [2024-08-21 02:59:09.305][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-21 02:59:09.306][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-08-21 02:59:09.307][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-21 02:59:09.309][biodb::testContext]
biodb.INFO [2024-08-21 02:59:09.325][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-08-21 02:59:09.328][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-08-21 02:59:09.334][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-21 02:59:09.335][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-08-21 02:59:09.337][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-08-21 02:59:09.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.342][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-08-21 02:59:09.344][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-08-21 02:59:09.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.349][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-08-21 02:59:09.351][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-08-21 02:59:09.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.356][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-08-21 02:59:09.358][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-08-21 02:59:09.367][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-08-21 02:59:09.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.373][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-08-21 02:59:09.375][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-08-21 02:59:09.376][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-08-21 02:59:09.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.382][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-08-21 02:59:09.383][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-08-21 02:59:09.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.389][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-08-21 02:59:09.390][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-08-21 02:59:09.392][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-08-21 02:59:09.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.397][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-08-21 02:59:09.399][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-08-21 02:59:09.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.404][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-08-21 02:59:09.406][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-08-21 02:59:09.407][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-08-21 02:59:09.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.413][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-08-21 02:59:09.414][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-08-21 02:59:09.416][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-08-21 02:59:09.417][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-08-21 02:59:09.418][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-08-21 02:59:09.420][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-08-21 02:59:09.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.425][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-08-21 02:59:09.427][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-08-21 02:59:09.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.432][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-08-21 02:59:09.434][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-08-21 02:59:09.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.439][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-08-21 02:59:09.441][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-08-21 02:59:09.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.446][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-08-21 02:59:09.448][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-08-21 02:59:09.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.453][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-08-21 02:59:09.455][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-08-21 02:59:09.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.460][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-08-21 02:59:09.462][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-08-21 02:59:09.472][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-08-21 02:59:09.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.478][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-08-21 02:59:09.479][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-08-21 02:59:09.481][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-08-21 02:59:09.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.486][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-08-21 02:59:09.489][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.491][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-08-21 02:59:09.492][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.494][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:59:09.495][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.496][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.498][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.499][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.501][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-21 02:59:09.502][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:59:09.504][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.505][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-08-21 02:59:09.507][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:59:09.508][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.510][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.511][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-21 02:59:09.511][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-21 02:59:09.511][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-21 02:59:09.511][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-21 02:59:09.511][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-21 02:59:09.512][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:59:09.514][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:09.515][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:09.517][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:59:09.518][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:09.519][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:09.521][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.522][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.524][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:09.525][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:09.533][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.535][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.537][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-08-21 02:59:09.540][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.541][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-08-21 02:59:09.543][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.544][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:59:09.545][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.547][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.548][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.549][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.551][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-21 02:59:09.552][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:59:09.554][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.555][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-08-21 02:59:09.557][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:59:09.558][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.559][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.561][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-21 02:59:09.561][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-21 02:59:09.561][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-21 02:59:09.561][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-21 02:59:09.561][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-21 02:59:09.562][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:59:09.564][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:09.565][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:09.566][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:59:09.568][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:09.569][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:09.570][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.572][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.573][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:09.574][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:09.576][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.577][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.579][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-08-21 02:59:09.581][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.583][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-08-21 02:59:09.584][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.586][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:59:09.587][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.588][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.590][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.591][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.593][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-21 02:59:09.594][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:59:09.595][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.597][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-08-21 02:59:09.598][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:59:09.600][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.601][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.602][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.604][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:59:09.605][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:09.606][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:09.608][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:59:09.609][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:09.610][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:09.612][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.613][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.615][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:09.616][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:09.617][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.619][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.620][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-08-21 02:59:09.623][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.624][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-08-21 02:59:09.626][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.627][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:59:09.629][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.630][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.631][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.633][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.634][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-21 02:59:09.636][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:59:09.637][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.639][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-08-21 02:59:09.640][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:59:09.641][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.643][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:09.644][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.646][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:59:09.647][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:09.648][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:09.650][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:59:09.651][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:09.652][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:09.654][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:59:09.655][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.657][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:09.658][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:09.659][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:09.661][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:09.663][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-21 02:59:09.664][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.665][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[2024-08-21 02:59:09.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:09.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:09.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:09.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:09.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:09.787][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-08-21 02:59:09.789][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-08-21 02:59:09.791][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-08-21 02:59:09.793][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-08-21 02:59:09.795][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-08-21 02:59:09.797][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-21 02:59:09.799][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-08-21 02:59:09.801][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-08-21 02:59:09.803][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-08-21 02:59:09.805][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-21 02:59:09.807][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-21 02:59:09.809][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-08-21 02:59:09.811][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-08-21 02:59:09.814][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-08-21 02:59:09.816][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-08-21 02:59:09.818][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-21 02:59:09.820][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-08-21 02:59:09.822][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-08-21 02:59:09.824][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-08-21 02:59:09.826][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-08-21 02:59:09.828][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-08-21 02:59:09.830][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-08-21 02:59:09.832][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-08-21 02:59:09.841][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-08-21 02:59:09.844][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-08-21 02:59:09.846][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-08-21 02:59:09.848][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-08-21 02:59:09.850][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-08-21 02:59:09.852][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-08-21 02:59:09.854][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-08-21 02:59:09.856][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-08-21 02:59:09.858][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-08-21 02:59:09.860][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-08-21 02:59:09.862][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-08-21 02:59:09.864][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-08-21 02:59:09.866][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-08-21 02:59:09.868][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-08-21 02:59:09.870][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-08-21 02:59:09.872][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-08-21 02:59:09.875][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-08-21 02:59:09.877][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-08-21 02:59:09.879][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-08-21 02:59:09.881][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-08-21 02:59:09.883][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-08-21 02:59:09.885][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-08-21 02:59:09.887][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-08-21 02:59:09.889][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-08-21 02:59:09.891][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-08-21 02:59:09.893][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-08-21 02:59:09.895][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-08-21 02:59:09.897][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-08-21 02:59:09.899][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-08-21 02:59:09.901][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-08-21 02:59:09.904][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-08-21 02:59:09.906][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-08-21 02:59:09.908][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-08-21 02:59:09.910][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-08-21 02:59:09.913][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-08-21 02:59:09.915][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-08-21 02:59:09.917][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-08-21 02:59:09.919][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-08-21 02:59:09.921][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-08-21 02:59:09.923][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-08-21 02:59:09.931][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-08-21 02:59:09.933][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-08-21 02:59:09.935][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-08-21 02:59:09.937][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-08-21 02:59:09.939][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-08-21 02:59:09.942][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-08-21 02:59:09.944][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-08-21 02:59:09.946][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-08-21 02:59:09.948][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-08-21 02:59:09.950][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-08-21 02:59:09.952][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-08-21 02:59:09.954][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-08-21 02:59:09.956][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-08-21 02:59:09.959][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-08-21 02:59:09.961][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-08-21 02:59:09.963][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-08-21 02:59:09.965][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-08-21 02:59:09.967][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-08-21 02:59:09.969][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-08-21 02:59:09.971][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-08-21 02:59:09.974][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-08-21 02:59:09.991][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-08-21 02:59:10.000][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-21 02:59:10.012][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:10.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:10.015][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:10.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:12.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:12.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:12.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:12.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:12.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:12.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:12.869][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[2024-08-21 02:59:12.876][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-08-21 02:59:12.880][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:59:12.883][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:12.884][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-08-21 02:59:12.886][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:12.887][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:59:12.889][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:12.890][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-08-21 02:59:12.892][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:12.893][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:59:12.895][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-08-21 02:59:12.896][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:59:12.898][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:12.899][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-08-21 02:59:12.900][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-08-21 02:59:12.902][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-08-21 02:59:12.903][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:12.905][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-21 02:59:12.905][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-08-21 02:59:12.905][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-08-21 02:59:12.906][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-08-21 02:59:12.908][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:12.909][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:12.911][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:59:12.912][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:12.913][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:12.915][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:59:12.916][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-21 02:59:12.916][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-08-21 02:59:12.918][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:12.919][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:12.920][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:12.922][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:12.924][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-08-21 02:59:12.926][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-21 02:59:12.928][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-21 02:59:12.930][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-21 02:59:12.933][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-21 02:59:12.937][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:59:12.939][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-08-21 02:59:12.940][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:59:12.942][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-21 02:59:12.944][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:59:12.946][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:59:12.948][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-08-21 02:59:12.949][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-08-21 02:59:12.951][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-21 02:59:12.951][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-08-21 02:59:12.952][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:12.954][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:12.955][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-08-21 02:59:12.956][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-08-21 02:59:12.958][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:59:12.960][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-21 02:59:12.962][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:59:12.963][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:59:12.965][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-21 02:59:12.967][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:59:12.969][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-08-21 02:59:12.971][biodb::testThat]
biodb.INFO [2024-08-21 02:59:12.972][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-08-21 02:59:12.973][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:59:12.975][biodb::testThat]
biodb.DEBUG[2024-08-21 02:59:12.982][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:12.984][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:12.986][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-21 02:59:12.988][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:12.990][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-21 02:59:12.992][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-21 02:59:12.993][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-21 02:59:12.995][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-21 02:59:12.996][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-21 02:59:13.003][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-08-21 02:59:13.013][biodb::testThat]
biodb.INFO [2024-08-21 02:59:13.014][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-08-21 02:59:13.015][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:59:13.017][biodb::testThat]
biodb.DEBUG[2024-08-21 02:59:13.019][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-08-21 02:59:13.021][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-08-21 02:59:13.023][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:13.025][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-08-21 02:59:13.028][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-08-21 02:59:13.030][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-08-21 02:59:13.041][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-08-21 02:59:13.043][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-21 02:59:13.045][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-21 02:59:13.047][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-21 02:59:13.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:59:13.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:13.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:13.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:13.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:13.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-21 02:59:13.067][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.068][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.071][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.079][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:13.080][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:13.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.083][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.085][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:13.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:13.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.091][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:13.093][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:13.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.095][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.097][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:13.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:13.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.103][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:13.105][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:13.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.107][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.109][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:13.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:13.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.115][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:13.117][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:13.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.120][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:13.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:13.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.128][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:13.129][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:13.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.132][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:13.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:13.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.140][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:13.141][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:13.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.144][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.146][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:13.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:13.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.152][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:13.153][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:13.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.156][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.158][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:13.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:13.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.164][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:13.165][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:13.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.168][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.170][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:13.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:13.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.176][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:13.177][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:13.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.180][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.182][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:13.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:13.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.188][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:13.189][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:13.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.199][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:13.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:13.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.208][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:13.209][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:13.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.212][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.214][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:13.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:13.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.219][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.221][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.223][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.225][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.231][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:13.233][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:13.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.235][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:13.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:13.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.243][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:13.244][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:13.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.247][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:13.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:13.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.255][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:13.256][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:13.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.259][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.260][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:13.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:13.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.266][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:13.268][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:13.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.270][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.272][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:13.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:13.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.278][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-08-21 02:59:13.279][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:13.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.282][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.284][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-08-21 02:59:13.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:13.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.307][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:13.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:13.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.312][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:13.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:13.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.318][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:13.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:13.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.323][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:13.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:13.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.329][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:13.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:13.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.334][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:13.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:13.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:13.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:13.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:13.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:13.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:13.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:13.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:13.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:13.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:13.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:13.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:13.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:13.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.384][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:13.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:13.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.390][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:13.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:13.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.396][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:13.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:13.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.402][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:13.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:13.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.408][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:13.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:13.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.414][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:13.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:13.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.420][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:13.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:13.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.426][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:13.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:13.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.432][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:13.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:13.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.438][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:13.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:13.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.443][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:13.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:13.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.449][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:13.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:13.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.455][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:13.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:13.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.461][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:13.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:13.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.467][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:13.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:13.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.472][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:13.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:13.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:13.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:13.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:13.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:13.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.509][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.516][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:13.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:13.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.522][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:13.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:13.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.527][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:13.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:13.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:13.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:13.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:13.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:13.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:13.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:13.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.550][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:13.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:13.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.556][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:13.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:13.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.562][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:13.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:13.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.567][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:13.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:13.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.573][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:13.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:13.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.579][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:13.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:13.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.584][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:13.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:13.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.590][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:13.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:13.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.596][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:13.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:13.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.601][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:13.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:13.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.607][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:13.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:13.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.613][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:13.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:13.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.618][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-21 02:59:13.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.641][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-21 02:59:13.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:13.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.648][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:13.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:13.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:13.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:13.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:13.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:13.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:13.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:13.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.678][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:13.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:13.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.684][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:13.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:13.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.690][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:13.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:13.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.701][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:13.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:13.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:59:13.740][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-08-21 02:59:13.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:13.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:13.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:13.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:13.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-08-21 02:59:13.766][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-08-21 02:59:13.768][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-08-21 02:59:13.769][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-08-21 02:59:13.771][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-08-21 02:59:13.772][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:13.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:13.774][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:13.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:13.777][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-08-21 02:59:13.784][biodb::testContext]
biodb.INFO [2024-08-21 02:59:13.785][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-21 02:59:13.787][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-08-21 02:59:13.788][biodb::testContext] ********************************************************************************
biodb.INFO [2024-08-21 02:59:13.789][biodb::testContext]
biodb.INFO [2024-08-21 02:59:13.797][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-08-21 02:59:13.801][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-08-21 02:59:13.806][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-21 02:59:13.807][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-08-21 02:59:13.809][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-08-21 02:59:13.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.822][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-08-21 02:59:13.824][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-08-21 02:59:13.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.829][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-08-21 02:59:13.831][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-08-21 02:59:13.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.836][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-08-21 02:59:13.837][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-08-21 02:59:13.838][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-08-21 02:59:13.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.844][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-08-21 02:59:13.845][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-08-21 02:59:13.846][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-08-21 02:59:13.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.852][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-08-21 02:59:13.853][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-08-21 02:59:13.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.858][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-08-21 02:59:13.860][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-08-21 02:59:13.861][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-08-21 02:59:13.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.866][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-08-21 02:59:13.868][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-08-21 02:59:13.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.873][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-08-21 02:59:13.874][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-08-21 02:59:13.875][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-08-21 02:59:13.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.879][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[2024-08-21 02:59:13.881][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-08-21 02:59:13.882][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-08-21 02:59:13.883][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-08-21 02:59:13.885][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-08-21 02:59:13.886][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-08-21 02:59:13.888][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-08-21 02:59:13.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.893][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-08-21 02:59:13.894][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-08-21 02:59:13.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.899][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-08-21 02:59:13.900][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-08-21 02:59:13.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.905][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-08-21 02:59:13.907][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-08-21 02:59:13.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.912][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-08-21 02:59:13.913][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-08-21 02:59:13.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.918][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-08-21 02:59:13.920][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-08-21 02:59:13.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.925][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-08-21 02:59:13.926][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-08-21 02:59:13.937][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-08-21 02:59:13.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.942][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-08-21 02:59:13.943][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-08-21 02:59:13.945][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-08-21 02:59:13.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:13.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:13.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:13.950][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-08-21 02:59:13.952][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:13.954][self$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[2024-08-21 02:59:13.955][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:13.956][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:59:13.958][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:13.959][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:59:13.961][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:13.962][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:59:13.963][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-21 02:59:13.972][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:59:13.974][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:13.975][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-08-21 02:59:13.976][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:59:13.978][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:13.979][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:13.981][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-21 02:59:13.981][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-21 02:59:13.981][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-21 02:59:13.981][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-21 02:59:13.981][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-21 02:59:13.982][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:59:13.983][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:13.985][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:13.986][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:59:13.987][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:13.988][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:13.990][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:59:13.991][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:13.993][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:13.994][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:13.995][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:13.996][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:13.998][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-08-21 02:59:14.001][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.002][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-08-21 02:59:14.003][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.005][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:59:14.006][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.008][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.009][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.010][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.012][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-21 02:59:14.013][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:59:14.014][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.016][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-08-21 02:59:14.017][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:59:14.019][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.020][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.021][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-21 02:59:14.021][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-08-21 02:59:14.021][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-08-21 02:59:14.021][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-08-21 02:59:14.021][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-08-21 02:59:14.023][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:59:14.024][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:14.025][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:14.027][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:59:14.028][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:14.029][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:14.031][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.032][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.033][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:14.035][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:14.036][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.037][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.039][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-08-21 02:59:14.041][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.043][self$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[2024-08-21 02:59:14.044][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.045][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:59:14.047][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.048][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.050][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.051][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.052][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-08-21 02:59:14.054][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:59:14.055][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.057][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-08-21 02:59:14.058][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:59:14.059][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.061][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.062][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.063][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:59:14.065][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:14.066][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:14.067][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:59:14.068][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:14.070][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:14.071][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.072][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.074][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:14.075][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:14.076][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.077][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.079][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-08-21 02:59:14.081][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.083][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-08-21 02:59:14.084][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.085][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:59:14.087][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.088][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.090][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.091][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.092][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-08-21 02:59:14.094][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:59:14.095][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.096][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-08-21 02:59:14.098][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:59:14.099][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.100][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.102][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.103][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-08-21 02:59:14.105][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:14.113][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:14.115][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:59:14.116][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:14.117][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:14.119][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.120][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.122][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:14.123][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:14.124][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.125][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.127][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-21 02:59:14.129][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.203][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[2024-08-21 02:59:14.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.235][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-08-21 02:59:14.237][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-08-21 02:59:14.239][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-08-21 02:59:14.241][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-08-21 02:59:14.243][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-08-21 02:59:14.245][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-21 02:59:14.254][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-08-21 02:59:14.256][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-08-21 02:59:14.258][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-08-21 02:59:14.260][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-21 02:59:14.262][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-21 02:59:14.264][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-08-21 02:59:14.266][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-08-21 02:59:14.268][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-08-21 02:59:14.270][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-08-21 02:59:14.272][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-21 02:59:14.273][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-08-21 02:59:14.275][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-08-21 02:59:14.277][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-08-21 02:59:14.279][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-08-21 02:59:14.281][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-08-21 02:59:14.283][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-08-21 02:59:14.285][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-08-21 02:59:14.287][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-08-21 02:59:14.289][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-08-21 02:59:14.291][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-08-21 02:59:14.293][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-08-21 02:59:14.295][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-08-21 02:59:14.297][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-08-21 02:59:14.298][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-08-21 02:59:14.300][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-08-21 02:59:14.302][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-08-21 02:59:14.304][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-08-21 02:59:14.306][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-08-21 02:59:14.308][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-08-21 02:59:14.310][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-08-21 02:59:14.312][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-08-21 02:59:14.314][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-08-21 02:59:14.316][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-08-21 02:59:14.317][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-08-21 02:59:14.319][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-08-21 02:59:14.321][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-08-21 02:59:14.323][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-08-21 02:59:14.325][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-08-21 02:59:14.327][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-08-21 02:59:14.329][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-08-21 02:59:14.331][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-08-21 02:59:14.333][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-08-21 02:59:14.335][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-08-21 02:59:14.337][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-08-21 02:59:14.339][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-08-21 02:59:14.340][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-08-21 02:59:14.342][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-08-21 02:59:14.344][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-08-21 02:59:14.346][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-08-21 02:59:14.348][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-08-21 02:59:14.350][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-08-21 02:59:14.352][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-08-21 02:59:14.354][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-08-21 02:59:14.356][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-08-21 02:59:14.358][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-08-21 02:59:14.360][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-08-21 02:59:14.362][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-08-21 02:59:14.363][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-08-21 02:59:14.365][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-08-21 02:59:14.367][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-08-21 02:59:14.369][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-08-21 02:59:14.371][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-08-21 02:59:14.373][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-08-21 02:59:14.375][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-08-21 02:59:14.377][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-08-21 02:59:14.379][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-08-21 02:59:14.381][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-08-21 02:59:14.382][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-08-21 02:59:14.392][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-08-21 02:59:14.395][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-08-21 02:59:14.397][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-08-21 02:59:14.399][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-08-21 02:59:14.401][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-08-21 02:59:14.403][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-08-21 02:59:14.405][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-08-21 02:59:14.406][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-08-21 02:59:14.408][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-08-21 02:59:14.410][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-08-21 02:59:14.413][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-08-21 02:59:14.414][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-08-21 02:59:14.415][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.418][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.427][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[2024-08-21 02:59:14.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.553][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[2024-08-21 02:59:14.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-08-21 02:59:14.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:14.572][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-08-21 02:59:14.574][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:59:14.577][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.578][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.579][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.581][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-08-21 02:59:14.582][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.583][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-08-21 02:59:14.585][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.586][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.587][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-08-21 02:59:14.589][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-08-21 02:59:14.590][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.591][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-08-21 02:59:14.593][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-08-21 02:59:14.594][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-08-21 02:59:14.596][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-08-21 02:59:14.597][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-08-21 02:59:14.597][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-08-21 02:59:14.597][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-08-21 02:59:14.598][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-08-21 02:59:14.600][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:14.601][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:14.602][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-08-21 02:59:14.603][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-08-21 02:59:14.605][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-08-21 02:59:14.606][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-08-21 02:59:14.607][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-21 02:59:14.607][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-08-21 02:59:14.609][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:14.610][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:14.611][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-08-21 02:59:14.612][self$setPropertyValue]
biodb.DEBUG[2024-08-21 02:59:14.614][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-08-21 02:59:14.616][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-08-21 02:59:14.618][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-08-21 02:59:14.620][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-08-21 02:59:14.622][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-08-21 02:59:14.627][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:59:14.628][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-08-21 02:59:14.630][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:59:14.632][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-21 02:59:14.633][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:59:14.634][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:59:14.636][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-08-21 02:59:14.638][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-08-21 02:59:14.639][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-08-21 02:59:14.639][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-08-21 02:59:14.640][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-08-21 02:59:14.642][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-08-21 02:59:14.643][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-08-21 02:59:14.644][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-08-21 02:59:14.645][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-08-21 02:59:14.647][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-21 02:59:14.649][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:59:14.650][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:59:14.652][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-08-21 02:59:14.654][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-08-21 02:59:14.655][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-08-21 02:59:14.657][biodb::testThat]
biodb.INFO [2024-08-21 02:59:14.658][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-08-21 02:59:14.660][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-08-21 02:59:14.669][biodb::testThat]
biodb.DEBUG[2024-08-21 02:59:14.672][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-08-21 02:59:14.673][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-08-21 02:59:14.674][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-08-21 02:59:14.678][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:14.680][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:14.682][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-21 02:59:14.684][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:14.685][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-21 02:59:14.687][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-21 02:59:14.688][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-21 02:59:14.689][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-21 02:59:14.691][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-21 02:59:14.692][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-21 02:59:14.693][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-08-21 02:59:14.696][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-08-21 02:59:14.697][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-08-21 02:59:14.699][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:14.701][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-08-21 02:59:14.704][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-08-21 02:59:14.705][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-08-21 02:59:14.709][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-08-21 02:59:14.711][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-21 02:59:14.713][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-21 02:59:14.714][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-21 02:59:14.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:59:14.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:14.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:14.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:14.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:14.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:14.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-21 02:59:14.734][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:14.735][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:14.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.738][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:14.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:14.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.745][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:14.746][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:14.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.749][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.751][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:14.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:14.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.756][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:14.758][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:14.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.760][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.762][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:14.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:14.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.768][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:14.769][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:14.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.772][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.774][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:14.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:14.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.779][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:14.781][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:14.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.783][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:14.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:14.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.791][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:14.792][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:14.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.795][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:14.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:14.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.803][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:14.804][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:14.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.807][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.809][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:14.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:14.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.823][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:14.824][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:14.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.827][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.829][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:14.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:14.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.834][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:14.836][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:14.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.838][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.840][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:14.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:14.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.846][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:14.848][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:14.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.850][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.852][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:14.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:14.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.858][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:14.859][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:14.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.862][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.864][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:14.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:14.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.869][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:14.871][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:14.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.873][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.875][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:14.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:14.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.881][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:14.882][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:14.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.885][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.887][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:14.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:14.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.892][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:14.894][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:14.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.897][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:14.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:14.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.904][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:14.906][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:14.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.908][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.910][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:14.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:14.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.916][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:14.917][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:14.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.920][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.922][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:14.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:14.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.929][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:14.930][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:14.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.933][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.935][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:14.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:14.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.940][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-08-21 02:59:14.942][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:14.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.944][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.946][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-08-21 02:59:14.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:14.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:14.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:14.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:14.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:14.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:14.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:14.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.985][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:14.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:14.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.990][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:14.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:14.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:14.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:14.996][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:14.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:14.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.001][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.007][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.012][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.051][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.056][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.061][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.067][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.072][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.078][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.083][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.089][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.095][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.100][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.106][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.111][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.125][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:15.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:15.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.131][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:15.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:15.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:15.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:15.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:15.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:15.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.147][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:15.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:15.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.153][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:15.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:15.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.169][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.175][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.181][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.186][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.214][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.219][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.225][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.230][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.236][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.241][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:15.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:15.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.247][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:15.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:15.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.252][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:15.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:15.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.258][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:15.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:15.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.272][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:15.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:15.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:15.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:15.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.284][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-21 02:59:15.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.307][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-21 02:59:15.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.320][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.331][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.343][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:15.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:15.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.349][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:15.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:15.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.361][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:15.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:15.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:59:15.402][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-08-21 02:59:15.403][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.409][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.422][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.429][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:59:15.435][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-21 02:59:15.437][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-21 02:59:15.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:59:15.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:15.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:15.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:15.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:15.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:15.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:15.453][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-08-21 02:59:15.455][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-08-21 02:59:15.457][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:15.459][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-08-21 02:59:15.462][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-08-21 02:59:15.464][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-08-21 02:59:15.466][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-08-21 02:59:15.468][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-08-21 02:59:15.469][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-08-21 02:59:15.471][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-08-21 02:59:15.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:59:15.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:15.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:15.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:15.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:15.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:15.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-21 02:59:15.491][ef$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.493][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.496][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.504][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:15.505][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:15.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.508][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.510][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:15.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:15.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.516][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:15.518][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:15.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.521][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.523][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:15.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:15.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.529][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.530][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.533][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.535][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.541][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.543][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.546][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.554][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.556][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.559][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.567][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.568][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.571][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.573][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.586][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.589][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.592][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.594][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.600][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.601][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.604][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.606][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.612][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.613][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.616][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.618][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.624][ef$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:15.625][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:15.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.628][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.630][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:15.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:15.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.636][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:15.637][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:15.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.640][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:15.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:15.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.647][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.649][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.652][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.654][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.659][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.661][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.664][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.671][ef$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.673][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.676][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.677][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.683][ef$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.685][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.687][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.689][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.695][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:15.697][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:15.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.699][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.701][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:15.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:15.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.707][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-08-21 02:59:15.709][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.711][ef$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.713][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-08-21 02:59:15.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:15.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:15.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.745][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:15.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:15.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.751][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:15.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:15.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.757][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-08-21 02:59:15.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-08-21 02:59:15.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.763][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.768][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.774][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-08-21 02:59:15.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-08-21 02:59:15.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-08-21 02:59:15.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.813][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.818][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.824][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-08-21 02:59:15.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.829][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.835][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.840][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-08-21 02:59:15.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.846][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.851][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.857][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-08-21 02:59:15.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.863][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.868][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.874][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:15.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:15.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.879][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:15.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:15.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.893][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:15.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:15.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.900][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-08-21 02:59:15.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-08-21 02:59:15.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:15.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:15.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:15.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:15.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-08-21 02:59:15.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-08-21 02:59:15.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:15.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.942][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.947][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.953][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-08-21 02:59:15.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-08-21 02:59:15.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.977][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:15.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:15.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:15.995][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:15.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:15.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.000][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:16.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:16.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.006][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:16.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-08-21 02:59:16.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.012][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:16.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:16.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.018][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:16.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:16.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.024][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:16.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-08-21 02:59:16.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.030][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:16.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:16.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.036][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:16.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:16.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.049][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-08-21 02:59:16.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-08-21 02:59:16.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.055][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-21 02:59:16.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:16.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:16.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:16.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:16.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:16.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-08-21 02:59:16.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:16.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.077][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-08-21 02:59:16.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-08-21 02:59:16.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:16.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:16.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:16.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:16.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.095][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:16.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:16.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.101][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:16.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:16.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.106][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-08-21 02:59:16.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-08-21 02:59:16.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.112][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:16.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:16.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.117][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:16.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:16.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:16.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:16.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.128][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:16.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-08-21 02:59:16.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:16.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:16.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:16.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:16.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:16.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:16.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:16.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:16.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:16.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:16.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-08-21 02:59:16.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-08-21 02:59:16.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:59:16.165][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-08-21 02:59:16.166][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.171][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.177][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.182][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:59:16.196][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-21 02:59:16.197][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-08-21 02:59:16.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:59:16.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:16.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:16.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:16.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:16.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:16.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:16.219][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-08-21 02:59:16.220][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-08-21 02:59:16.221][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-08-21 02:59:16.242][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:16.244][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:16.246][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-21 02:59:16.248][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:16.249][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-21 02:59:16.251][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-21 02:59:16.252][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-21 02:59:16.254][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-21 02:59:16.255][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-21 02:59:16.256][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-21 02:59:16.257][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-21 02:59:16.260][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.265][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.270][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.276][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.281][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.286][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.292][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:59:16.297][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-21 02:59:16.298][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-21 02:59:16.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:59:16.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:16.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:16.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:16.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:16.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:16.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-21 02:59:16.313][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.319][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.331][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.338][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.344][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.349][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.354][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:59:16.360][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-08-21 02:59:16.361][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-21 02:59:16.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:59:16.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:16.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:16.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:16.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:16.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:16.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-08-21 02:59:16.382][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-08-21 02:59:16.383][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-08-21 02:59:16.384][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-08-21 02:59:16.387][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:16.389][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:16.391][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-08-21 02:59:16.392][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-08-21 02:59:16.394][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-08-21 02:59:16.396][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-08-21 02:59:16.397][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-08-21 02:59:16.398][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-08-21 02:59:16.400][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-08-21 02:59:16.401][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-08-21 02:59:16.402][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-08-21 02:59:16.405][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.410][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.416][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.421][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.427][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.433][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.438][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:59:16.444][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-08-21 02:59:16.445][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-08-21 02:59:16.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:59:16.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:16.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:16.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:16.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:16.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:16.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-08-21 02:59:16.461][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.466][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.479][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.486][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.491][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.497][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-08-21 02:59:16.502][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-08-21 02:59:16.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-08-21 02:59:16.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-08-21 02:59:16.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-08-21 02:59:16.507][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-08-21 02:59:16.509][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-08-21 02:59:16.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-08-21 02:59:16.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:16.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:16.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:16.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:16.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:16.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-08-21 02:59:16.532][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-08-21 02:59:16.533][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-08-21 02:59:16.535][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-08-21 02:59:16.536][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-08-21 02:59:16.537][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-08-21 02:59:16.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-08-21 02:59:16.539][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-08-21 02:59:16.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-08-21 02:59:16.542][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-08-21 02:59:16.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
12.512 4.702 66.193