Pierrick Roger
| Snapshot Date: 2024-11-19 13:40 -0500 (Tue, 19 Nov 2024) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: RELEASE_3_20 |
| git_last_commit: 0eb718c |
| git_last_commit_date: 2024-10-29 11:06:39 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-11-20 12:07 -0500 (Wed, 20 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4481 |
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4479 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4359 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4539 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4493 |
| 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 204/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.12.0 (landing page) Pierrick Roger
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| nebbiolo2 | Linux (Ubuntu 24.04.1 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 | 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: 1.12.0 |
| 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_1.12.0.tar.gz |
| StartedAt: 2024-11-20 05:37:08 -0000 (Wed, 20 Nov 2024) |
| EndedAt: 2024-11-20 05:40:46 -0000 (Wed, 20 Nov 2024) |
| EllapsedTime: 218.1 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_1.12.0.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 ‘1.12.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘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++ (conda-forge gcc 14.2.0-1) 14.2.0’
* checking installed package size ... NOTE
installed size is 7.3Mb
sub-directories of 1Mb or more:
libs 6.7Mb
* 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++ (conda-forge gcc 14.2.0-1) 14.2.0’
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 [2024-11-20 05:40:15.351][biodb::testContext]
biodb.INFO [2024-11-20 05:40:15.354][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-20 05:40:15.355][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-11-20 05:40:15.357][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-20 05:40:15.358][biodb::testContext]
biodb.INFO [2024-11-20 05:40:15.360][biodb::testThat]
biodb.INFO [2024-11-20 05:40:15.361][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-11-20 05:40:15.363][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:15.364][biodb::testThat]
biodb.INFO [2024-11-20 05:40:15.494][biodb::testContext]
biodb.INFO [2024-11-20 05:40:15.496][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-20 05:40:15.497][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-11-20 05:40:15.498][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-20 05:40:15.500][biodb::testContext]
biodb.INFO [2024-11-20 05:40:15.509][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-20 05:40:15.512][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-11-20 05:40:15.530][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-20 05:40:15.532][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-20 05:40:15.533][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-20 05:40:15.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.538][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-20 05:40:15.565][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-20 05:40:15.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.570][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-20 05:40:15.571][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-20 05:40:15.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.576][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-20 05:40:15.578][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-20 05:40:15.579][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-20 05:40:15.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.584][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-20 05:40:15.585][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-20 05:40:15.587][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-20 05:40:15.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.592][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-20 05:40:15.593][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-20 05:40:15.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.598][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-20 05:40:15.599][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-20 05:40:15.601][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-20 05:40:15.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.606][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-20 05:40:15.607][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-20 05:40:15.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.612][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-20 05:40:15.614][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-20 05:40:15.615][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-20 05:40:15.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.620][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-20 05:40:15.621][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-20 05:40:15.623][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-20 05:40:15.624][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-20 05:40:15.625][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-20 05:40:15.627][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-20 05:40:15.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.632][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-20 05:40:15.633][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-20 05:40:15.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.638][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-20 05:40:15.640][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-20 05:40:15.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.645][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-20 05:40:15.646][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-20 05:40:15.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.651][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-20 05:40:15.653][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-20 05:40:15.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.658][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-20 05:40:15.659][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-20 05:40:15.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.664][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-20 05:40:15.665][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-20 05:40:15.671][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-20 05:40:15.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.676][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-20 05:40:15.677][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-20 05:40:15.679][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-20 05:40:15.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.687][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-20 05:40:15.734][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.757][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-20 05:40:15.758][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.760][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:15.761][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.771][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.773][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.774][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.775][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-20 05:40:15.777][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:15.778][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.779][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-20 05:40:15.781][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:15.782][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.783][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.785][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-20 05:40:15.785][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-20 05:40:15.785][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-20 05:40:15.785][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-20 05:40:15.785][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-20 05:40:15.786][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:15.787][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:15.789][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:15.790][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:15.791][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:15.793][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:15.794][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.795][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.797][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:15.798][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:15.799][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.800][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.802][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-20 05:40:15.805][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.806][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-20 05:40:15.807][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.809][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:15.810][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.812][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.813][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.814][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.816][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-20 05:40:15.817][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:15.818][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.820][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-20 05:40:15.821][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:15.823][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.824][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.825][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-20 05:40:15.825][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-20 05:40:15.825][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-20 05:40:15.825][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-20 05:40:15.825][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-20 05:40:15.827][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:15.828][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:15.829][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:15.831][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:15.832][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:15.833][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:15.835][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.836][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.837][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:15.839][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:15.840][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.841][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.847][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-20 05:40:15.851][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.853][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-20 05:40:15.855][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.856][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:15.858][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.859][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.861][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.862][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.864][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-20 05:40:15.865][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:15.867][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.868][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-20 05:40:15.870][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:15.872][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.873][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.875][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.876][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:15.878][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:15.879][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:15.880][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:15.882][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:15.883][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:15.885][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.886][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.888][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:15.889][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:15.891][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.892][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.894][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-20 05:40:15.897][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.899][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-20 05:40:15.900][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.902][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:15.903][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.905][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.907][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.908][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.910][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-20 05:40:15.911][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:15.913][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.915][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-20 05:40:15.916][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:15.918][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.919][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:15.921][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.922][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:15.924][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:15.925][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:15.926][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:15.928][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:15.929][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:15.930][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:15.932][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.933][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:15.935][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:15.936][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:15.938][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:15.943][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-20 05:40:15.945][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:15.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:15.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:15.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:15.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:15.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:15.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:15.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:15.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:15.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:15.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:15.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:15.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:15.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:15.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:15.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:15.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:15.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:15.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:15.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.054][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[2024-11-20 05:40:16.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.077][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-20 05:40:16.083][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-20 05:40:16.086][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-20 05:40:16.088][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-20 05:40:16.090][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-20 05:40:16.092][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-20 05:40:16.095][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-20 05:40:16.097][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-20 05:40:16.099][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-20 05:40:16.101][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-20 05:40:16.104][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-20 05:40:16.106][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-20 05:40:16.108][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-20 05:40:16.111][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-20 05:40:16.113][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-20 05:40:16.115][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-20 05:40:16.117][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-20 05:40:16.119][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-20 05:40:16.121][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-20 05:40:16.124][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-20 05:40:16.126][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-20 05:40:16.128][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-20 05:40:16.130][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-20 05:40:16.132][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-20 05:40:16.134][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-20 05:40:16.136][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-20 05:40:16.138][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-20 05:40:16.140][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-20 05:40:16.142][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-20 05:40:16.144][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-20 05:40:16.146][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-20 05:40:16.148][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-20 05:40:16.150][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-20 05:40:16.152][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-20 05:40:16.154][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-20 05:40:16.156][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-20 05:40:16.158][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-20 05:40:16.160][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-20 05:40:16.162][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-20 05:40:16.164][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-20 05:40:16.166][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-20 05:40:16.168][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-20 05:40:16.170][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-20 05:40:16.172][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-20 05:40:16.174][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-20 05:40:16.176][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-20 05:40:16.178][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-20 05:40:16.180][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-20 05:40:16.182][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-20 05:40:16.184][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-20 05:40:16.186][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-20 05:40:16.188][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-20 05:40:16.190][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-20 05:40:16.192][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-20 05:40:16.194][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-20 05:40:16.196][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-20 05:40:16.198][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-20 05:40:16.200][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-20 05:40:16.202][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-20 05:40:16.204][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-20 05:40:16.206][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-20 05:40:16.208][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-20 05:40:16.210][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-20 05:40:16.213][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-20 05:40:16.214][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-20 05:40:16.216][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-20 05:40:16.218][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-20 05:40:16.220][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-20 05:40:16.222][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-20 05:40:16.224][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-20 05:40:16.226][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-20 05:40:16.228][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-20 05:40:16.230][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-20 05:40:16.232][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-20 05:40:16.234][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-20 05:40:16.236][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-20 05:40:16.238][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-20 05:40:16.240][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-20 05:40:16.242][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-20 05:40:16.244][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-20 05:40:16.246][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-20 05:40:16.248][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-20 05:40:16.250][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-20 05:40:16.259][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-20 05:40:16.261][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-20 05:40:16.265][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-20 05:40:16.266][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.269][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.293][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.DEBUG[2024-11-20 05:40:16.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:16.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.411][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[2024-11-20 05:40:16.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.419][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[2024-11-20 05:40:16.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:16.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.427][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[2024-11-20 05:40:16.430][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-20 05:40:16.444][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:16.447][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:16.449][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-20 05:40:16.450][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:16.451][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:16.453][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:16.454][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-20 05:40:16.455][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:16.457][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:16.458][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-20 05:40:16.459][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:16.461][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:16.462][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-20 05:40:16.463][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-20 05:40:16.465][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-20 05:40:16.466][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:16.468][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-20 05:40:16.468][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-20 05:40:16.468][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-20 05:40:16.469][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-20 05:40:16.470][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:16.472][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:16.473][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:16.474][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:16.475][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:16.477][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:16.478][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-20 05:40:16.478][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-20 05:40:16.479][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:16.481][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:16.482][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:16.483][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:16.492][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-20 05:40:16.494][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-20 05:40:16.496][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-20 05:40:16.499][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-20 05:40:16.501][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-20 05:40:16.531][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:16.533][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-20 05:40:16.538][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:16.594][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-20 05:40:16.600][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:16.601][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:16.603][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-20 05:40:16.605][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-20 05:40:16.606][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-20 05:40:16.606][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-20 05:40:16.607][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:16.609][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:16.610][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-20 05:40:16.611][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-20 05:40:16.612][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:16.638][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-20 05:40:16.639][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:16.641][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:16.643][private$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[2024-11-20 05:40:16.644][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:16.646][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-20 05:40:16.656][biodb::testThat]
biodb.INFO [2024-11-20 05:40:16.657][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-11-20 05:40:16.658][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:16.660][biodb::testThat]
biodb.TRACE[2024-11-20 05:40:16.666][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[2024-11-20 05:40:16.669][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-20 05:40:16.673][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-20 05:40:16.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:16.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:16.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:16.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:16.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:16.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:16.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-20 05:40:16.710][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:16.712][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:16.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.714][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:16.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:16.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.739][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:16.741][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:16.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.743][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.782][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:16.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:16.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.787][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:16.789][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:16.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.792][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.794][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:16.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:16.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.799][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:16.801][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:16.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.804][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.806][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:16.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:16.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.823][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:16.824][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:16.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.827][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:16.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:16.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.835][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:16.836][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:16.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.839][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:16.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:16.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.846][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:16.848][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:16.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.851][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.853][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:16.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:16.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.859][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:16.860][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:16.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.863][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.865][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:16.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:16.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.871][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:16.872][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:16.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.875][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.877][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:16.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:16.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.882][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:16.884][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:16.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.887][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.889][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:16.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:16.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.895][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:16.896][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:16.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.899][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.901][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:16.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:16.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.906][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:16.908][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:16.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.911][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:16.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:16.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.919][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:16.920][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:16.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.923][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.925][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:16.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:16.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.931][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:16.933][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:16.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.936][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:16.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:16.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.944][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:16.945][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:16.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.948][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.950][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:16.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:16.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.956][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:16.957][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:16.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.960][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.962][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:16.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:16.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.968][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:16.969][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:16.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.972][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.974][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:16.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:16.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.980][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-20 05:40:16.981][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:16.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.984][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.986][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-20 05:40:16.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:16.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:16.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:16.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:16.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:16.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:16.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.066][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:17.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:17.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.072][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:17.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:17.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.078][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:17.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:17.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.084][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:17.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:17.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.090][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:17.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:17.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.096][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:17.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:17.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.139][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:17.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:17.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.145][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:17.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:17.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.151][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:17.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:17.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.157][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:17.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:17.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.164][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:17.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:17.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:17.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:17.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.175][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:17.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:17.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.181][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:17.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:17.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.187][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:17.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:17.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.192][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:17.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:17.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.198][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:17.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:17.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.204][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:17.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:17.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.209][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:17.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:17.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.215][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:17.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:17.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.221][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:17.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:17.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:17.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:17.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:17.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:17.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:17.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:17.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.250][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.256][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.267][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.273][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.279][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:17.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:17.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:17.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:17.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:17.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:17.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.307][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.313][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.318][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.324][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.330][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.336][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.342][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.347][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.353][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:17.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:17.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:17.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:17.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.364][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:17.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:17.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.370][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-20 05:40:17.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.381][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.387][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.392][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-20 05:40:17.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:17.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.442][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.459][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.465][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.476][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:17.515][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-20 05:40:17.519][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-20 05:40:17.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-20 05:40:17.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.524][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-20 05:40:17.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-20 05:40:17.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.530][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-20 05:40:17.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-20 05:40:17.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.535][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-20 05:40:17.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-20 05:40:17.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.570][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.617][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.622][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.628][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:17.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.668][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.669][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.672][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:17.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:17.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.690][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.696][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.701][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.707][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.708][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.711][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.712][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:17.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.745][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.746][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.749][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:17.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.766][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.772][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.777][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.783][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.784][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.788][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:17.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.821][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.822][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.825][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:17.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.842][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.855][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.861][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.866][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.868][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.870][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.872][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:17.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.905][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.906][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.909][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.910][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:17.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:17.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.926][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:17.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:17.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.933][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:17.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:17.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.938][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:17.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:17.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.944][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:17.945][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:17.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.948][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.949][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:17.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:17.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.965][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:17.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:17.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.971][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:17.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:17.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.976][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:17.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:17.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.982][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:17.983][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:17.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.986][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:17.987][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:17.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:17.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:17.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.003][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.009][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.015][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.021][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.022][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.025][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.026][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.068][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.069][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.072][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.090][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.096][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.102][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.107][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.109][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.112][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.113][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.129][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.134][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.140][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.146][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.147][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.150][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.151][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.167][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.173][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.178][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.184][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.185][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.188][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.190][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.205][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:18.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:18.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.211][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:18.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:18.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.217][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:18.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:18.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.222][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:18.223][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:18.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.226][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.227][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:18.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:18.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:18.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:18.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:18.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:18.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:18.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:18.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.267][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:18.268][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:18.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.271][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:18.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:18.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.305][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.307][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.309][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.327][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.332][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.338][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.343][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.345][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.347][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.349][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.364][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:18.366][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:18.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.368][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.375][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.376][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.379][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.385][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.387][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.389][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.396][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.397][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.400][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.406][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:18.408][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:18.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.411][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.417][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.418][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.421][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.427][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.429][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.432][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.438][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.440][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.442][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.448][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:18.450][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:18.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.465][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.474][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:18.475][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:18.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.478][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.485][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:18.487][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:18.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.490][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.497][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.499][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.502][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.509][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:18.511][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:18.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.514][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.520][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.522][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.525][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.532][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:18.533][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:18.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.536][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.543][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:18.545][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:18.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.548][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.554][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:18.556][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:18.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.559][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.565][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:18.567][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:18.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.570][ef$get] fields variable is a list.
biodb.INFO [2024-11-20 05:40:18.581][biodb::testThat]
biodb.INFO [2024-11-20 05:40:18.583][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-11-20 05:40:18.584][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:18.585][biodb::testThat]
biodb.DEBUG[2024-11-20 05:40:18.608][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-11-20 05:40:18.618][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-20 05:40:18.624][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:18.626][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-20 05:40:18.629][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-11-20 05:40:18.631][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-20 05:40:18.635][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-11-20 05:40:18.637][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-20 05:40:18.675][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-20 05:40:18.689][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-20 05:40:18.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:18.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:18.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:18.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:18.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:18.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:18.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-20 05:40:18.711][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:18.712][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:18.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.715][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:18.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:18.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.723][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:18.725][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:18.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.728][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.730][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:18.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:18.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.736][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.737][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.740][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.742][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.749][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.750][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.753][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.755][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.762][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.763][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.766][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.775][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:18.776][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:18.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.779][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:18.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:18.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.787][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:18.788][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:18.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.791][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.793][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:18.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:18.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.799][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:18.800][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:18.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.803][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.805][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:18.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:18.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.811][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.812][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.815][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.817][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:18.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.823][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.824][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.827][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.829][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:18.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.835][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:18.836][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:18.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.839][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.841][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:18.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:18.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.847][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:18.848][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:18.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.851][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:18.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:18.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.858][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.860][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.863][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:18.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.870][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.872][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.874][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:18.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.882][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:18.884][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:18.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.886][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:18.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:18.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.901][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:18.902][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:18.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.905][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.907][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:18.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:18.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.913][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:18.914][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:18.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.917][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.919][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:18.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:18.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.924][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-20 05:40:18.926][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.929][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.931][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-20 05:40:18.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:18.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:18.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:18.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:18.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:18.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:18.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:18.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.953][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.958][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.964][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:18.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.969][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.975][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.980][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:18.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:18.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:18.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:18.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:19.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:19.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:19.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:19.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:19.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:19.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.018][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:19.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:19.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.024][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:19.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:19.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.029][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:19.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:19.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.035][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:19.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:19.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.040][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:19.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:19.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.046][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:19.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:19.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.051][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:19.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:19.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.057][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:19.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:19.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.062][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:19.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:19.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.068][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:19.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:19.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.073][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:19.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:19.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.079][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:19.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:19.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.092][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:19.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:19.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.098][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:19.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:19.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.103][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:19.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:19.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:19.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:19.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:19.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:19.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:19.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:19.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.144][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:19.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:19.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.150][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:19.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:19.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.155][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:19.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:19.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:19.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:19.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:19.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:19.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:19.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:19.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.178][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.184][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.196][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:19.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:19.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.201][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:19.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:19.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.207][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:19.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:19.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.213][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.218][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.224][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.230][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:19.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:19.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.236][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:19.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:19.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.242][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:19.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:19.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.247][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-20 05:40:19.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.259][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.265][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.271][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-20 05:40:19.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:19.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.278][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.291][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.308][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.314][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:19.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:19.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.319][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:19.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:19.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:19.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:19.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.331][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:19.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:19.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:19.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:19.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:19.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:19.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:19.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:19.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:19.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:19.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:19.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:19.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:19.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:19.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.370][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-20 05:40:19.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-11-20 05:40:19.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-11-20 05:40:19.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-11-20 05:40:19.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-11-20 05:40:19.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-11-20 05:40:19.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-11-20 05:40:19.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-20 05:40:19.398][biodb::testThat]
biodb.INFO [2024-11-20 05:40:19.399][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-11-20 05:40:19.400][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:19.402][biodb::testThat]
biodb.TRACE[2024-11-20 05:40:19.406][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.407][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.410][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.412][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-11-20 05:40:19.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.467][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-11-20 05:40:19.469][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-11-20 05:40:19.470][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-20 05:40:19.479][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-20 05:40:19.481][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.483][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.485][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-20 05:40:19.487][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.488][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-20 05:40:19.490][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-20 05:40:19.492][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-20 05:40:19.493][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-20 05:40:19.495][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-20 05:40:19.496][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-20 05:40:19.497][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-20 05:40:19.500][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.505][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.511][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.522][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-20 05:40:19.524][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-20 05:40:19.525][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-11-20 05:40:19.540][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:19.542][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:19.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.545][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.546][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-11-20 05:40:19.562][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:19.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:19.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.567][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:19.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:19.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.573][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:19.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:19.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.582][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[2024-11-20 05:40:19.666][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-20 05:40:19.668][private$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[2024-11-20 05:40:19.669][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-11-20 05:40:19.690][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.692][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.694][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-20 05:40:19.696][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.697][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-20 05:40:19.719][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-20 05:40:19.720][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-20 05:40:19.722][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-20 05:40:19.723][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-20 05:40:19.724][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-20 05:40:19.726][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-20 05:40:19.728][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:19.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:19.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.734][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:19.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:19.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.739][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:19.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:19.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.745][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:19.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:19.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.750][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-20 05:40:19.751][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-20 05:40:19.753][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-11-20 05:40:19.768][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.769][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.772][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.773][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-11-20 05:40:19.789][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.794][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.800][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.809][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-11-20 05:40:19.811][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-11-20 05:40:19.812][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-11-20 05:40:19.813][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-11-20 05:40:19.816][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.817][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.819][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-20 05:40:19.821][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.823][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-20 05:40:19.825][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-20 05:40:19.826][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-20 05:40:19.827][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-20 05:40:19.836][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-20 05:40:19.837][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-20 05:40:19.839][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-20 05:40:19.841][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.847][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.853][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.858][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:19.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.864][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-20 05:40:19.865][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-20 05:40:19.867][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-11-20 05:40:19.886][biodb::testThat]
biodb.INFO [2024-11-20 05:40:19.887][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-11-20 05:40:19.889][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:19.890][biodb::testThat]
biodb.TRACE[2024-11-20 05:40:19.904][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.910][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.916][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.934][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-11-20 05:40:19.936][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-20 05:40:19.937][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-20 05:40:19.940][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.942][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.944][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-20 05:40:19.945][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:19.947][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-20 05:40:19.949][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-20 05:40:19.950][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-20 05:40:19.951][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-20 05:40:19.953][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-20 05:40:19.954][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-20 05:40:19.955][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-20 05:40:19.958][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.964][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.969][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:19.975][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:19.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:19.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:19.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:19.980][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-20 05:40:19.982][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-11-20 05:40:20.001][biodb::testThat]
biodb.INFO [2024-11-20 05:40:20.003][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-11-20 05:40:20.004][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:20.005][biodb::testThat]
biodb.TRACE[2024-11-20 05:40:20.041][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-20 05:40:20.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-20 05:40:20.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:20.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:20.046][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-20 05:40:20.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-20 05:40:20.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:20.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:20.052][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-20 05:40:20.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-20 05:40:20.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:20.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:20.058][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-20 05:40:20.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-20 05:40:20.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:20.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:20.123][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-20 05:40:20.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-20 05:40:20.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:20.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:20.128][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-20 05:40:20.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-20 05:40:20.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:20.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:20.133][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-20 05:40:20.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-20 05:40:20.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:20.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:20.139][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-20 05:40:20.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-20 05:40:20.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:20.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-20 05:40:20.152][biodb::testThat]
biodb.INFO [2024-11-20 05:40:20.153][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-11-20 05:40:20.155][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:20.156][biodb::testThat]
biodb.INFO [2024-11-20 05:40:20.167][biodb::testThat]
biodb.INFO [2024-11-20 05:40:20.168][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-11-20 05:40:20.169][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:20.171][biodb::testThat]
biodb.INFO [2024-11-20 05:40:20.181][biodb::testThat]
biodb.INFO [2024-11-20 05:40:20.182][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-11-20 05:40:20.183][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:20.185][biodb::testThat]
biodb.DEBUG[2024-11-20 05:40:20.189][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-11-20 05:40:32.758][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-11-20 05:40:34.392][biodb::testThat]
biodb.INFO [2024-11-20 05:40:34.393][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-11-20 05:40:34.395][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:34.396][biodb::testThat]
biodb.DEBUG[2024-11-20 05:40:37.288][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-11-20 05:40:38.961][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:38.967][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:38.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:38.970][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:38.971][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:38.973][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:38.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:38.976][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:38.977][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:38.978][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:38.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:38.981][ef$get] fields variable is a list.
biodb.INFO [2024-11-20 05:40:38.983][biodb::testThat]
biodb.INFO [2024-11-20 05:40:38.985][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-11-20 05:40:38.986][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:38.987][biodb::testThat]
biodb.DEBUG[2024-11-20 05:40:38.990][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-11-20 05:40:39.069][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-20 05:40:39.073][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:39.075][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-20 05:40:39.101][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-11-20 05:40:39.103][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-20 05:40:39.105][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-20 05:40:39.106][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-20 05:40:39.123][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:39.125][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-20 05:40:39.126][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-20 05:40:39.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:39.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:39.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:39.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.142][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.TRACE[2024-11-20 05:40:39.144][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:39.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:39.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.150][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:39.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:39.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:39.190][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-11-20 05:40:39.191][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-11-20 05:40:39.213][biodb::testThat]
biodb.INFO [2024-11-20 05:40:39.214][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-11-20 05:40:39.216][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:39.217][biodb::testThat]
biodb.DEBUG[2024-11-20 05:40:39.227][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-11-20 05:40:39.229][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-11-20 05:40:39.230][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-20 05:40:39.233][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:39.235][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-20 05:40:39.237][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-11-20 05:40:39.239][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-20 05:40:39.240][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-20 05:40:39.242][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-20 05:40:39.244][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:39.246][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-20 05:40:39.247][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-20 05:40:39.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:39.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:39.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:39.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.262][FUN] Functions in observer BiodbConfig: [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[2024-11-20 05:40:39.265][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:39.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:39.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.308][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:39.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:39.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:39.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:39.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:39.346][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-11-20 05:40:39.348][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-11-20 05:40:39.349][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-11-20 05:40:39.365][biodb::testThat]
biodb.INFO [2024-11-20 05:40:39.366][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-11-20 05:40:39.368][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:39.369][biodb::testThat]
biodb.INFO [2024-11-20 05:40:39.399][biodb::testThat]
biodb.INFO [2024-11-20 05:40:39.400][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-11-20 05:40:39.402][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:39.403][biodb::testThat]
biodb.DEBUG[2024-11-20 05:40:39.406][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:39.408][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:39.410][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-20 05:40:39.412][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:39.413][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-20 05:40:39.415][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-20 05:40:39.417][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-20 05:40:39.418][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-20 05:40:39.419][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-11-20 05:40:39.429][biodb::testThat]
biodb.INFO [2024-11-20 05:40:39.431][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-11-20 05:40:39.432][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:39.433][biodb::testThat]
biodb.DEBUG[2024-11-20 05:40:39.436][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:39.438][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:39.440][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-20 05:40:39.442][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:39.444][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-20 05:40:39.446][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-20 05:40:39.447][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-20 05:40:39.448][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-20 05:40:39.457][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-11-20 05:40:39.469][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:39.471][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:39.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.474][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.475][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:39.477][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:39.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.479][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:39.481][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:39.482][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:39.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:39.485][ef$get] fields variable is a list.
biodb.INFO [2024-11-20 05:40:39.487][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-20 05:40:39.488][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-20 05:40:39.500][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-20 05:40:39.501][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-20 05:40:39.503][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:39.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:39.505][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.508][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.509][FUN] Functions in observer BiodbConfig: [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 [2024-11-20 05:40:39.514][biodb::testContext]
biodb.INFO [2024-11-20 05:40:39.515][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-20 05:40:39.516][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-11-20 05:40:39.518][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-20 05:40:39.519][biodb::testContext]
biodb.INFO [2024-11-20 05:40:39.524][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-20 05:40:39.526][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-11-20 05:40:39.531][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-20 05:40:39.533][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-20 05:40:39.534][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-20 05:40:39.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.539][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-20 05:40:39.541][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-20 05:40:39.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.545][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[2024-11-20 05:40:39.546][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-20 05:40:39.548][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-20 05:40:39.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.553][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-20 05:40:39.554][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-20 05:40:39.556][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-20 05:40:39.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.561][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-20 05:40:39.562][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-20 05:40:39.564][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-20 05:40:39.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.569][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-20 05:40:39.570][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-20 05:40:39.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.576][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-20 05:40:39.577][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-20 05:40:39.579][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-20 05:40:39.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.584][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-20 05:40:39.585][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-20 05:40:39.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.591][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-20 05:40:39.592][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-20 05:40:39.594][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-20 05:40:39.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.599][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-20 05:40:39.600][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-20 05:40:39.602][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-20 05:40:39.603][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-20 05:40:39.605][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-20 05:40:39.606][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-20 05:40:39.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.620][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-20 05:40:39.621][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-20 05:40:39.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.626][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-20 05:40:39.628][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-20 05:40:39.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.631][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[2024-11-20 05:40:39.633][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-20 05:40:39.634][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-20 05:40:39.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.639][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-20 05:40:39.641][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-20 05:40:39.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.646][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-20 05:40:39.647][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-20 05:40:39.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.653][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-20 05:40:39.654][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-20 05:40:39.659][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-20 05:40:39.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.665][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-20 05:40:39.666][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-20 05:40:39.667][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-20 05:40:39.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.673][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-20 05:40:39.675][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.677][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-20 05:40:39.678][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.680][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:39.681][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.683][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.684][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.686][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.687][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-20 05:40:39.689][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:39.690][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.691][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-20 05:40:39.693][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:39.694][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.696][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.697][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-20 05:40:39.697][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-20 05:40:39.697][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-20 05:40:39.697][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-20 05:40:39.697][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-20 05:40:39.699][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:39.700][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:39.701][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:39.703][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:39.704][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:39.706][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:39.707][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.708][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.710][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:39.711][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:39.713][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.714][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.716][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-20 05:40:39.718][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.720][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-20 05:40:39.721][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.723][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:39.724][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.726][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.727][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.729][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.730][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-20 05:40:39.731][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:39.733][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.734][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-20 05:40:39.736][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:39.737][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.739][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.740][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-20 05:40:39.740][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-20 05:40:39.740][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-20 05:40:39.740][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-20 05:40:39.740][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-20 05:40:39.741][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:39.743][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:39.744][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:39.745][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:39.747][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:39.748][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:39.749][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.751][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.752][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:39.754][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:39.755][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.756][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.758][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-20 05:40:39.761][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.762][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-20 05:40:39.763][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.765][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:39.766][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.775][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.777][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.778][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.780][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-20 05:40:39.781][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:39.782][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.784][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-20 05:40:39.785][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:39.786][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.788][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.789][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.791][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:39.792][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:39.793][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:39.794][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:39.796][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:39.797][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:39.798][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.800][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.801][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:39.802][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:39.804][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.805][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.806][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-20 05:40:39.809][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.810][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-20 05:40:39.812][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.813][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:39.814][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.816][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.817][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.818][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.820][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-20 05:40:39.821][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:39.822][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.824][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-20 05:40:39.825][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:39.826][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.828][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:39.829][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.830][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:39.832][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:39.833][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:39.834][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:39.836][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:39.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:39.838][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:39.839][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.841][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:39.842][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:39.843][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:39.845][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:39.846][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-20 05:40:39.848][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.879][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[2024-11-20 05:40:39.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.898][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[2024-11-20 05:40:39.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.904][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[2024-11-20 05:40:39.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:39.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:39.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:39.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:39.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:39.963][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-20 05:40:39.965][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-20 05:40:39.967][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-20 05:40:39.969][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-20 05:40:39.972][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-20 05:40:39.973][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-20 05:40:39.976][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-20 05:40:39.977][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-20 05:40:39.980][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-20 05:40:39.982][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-20 05:40:39.984][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-20 05:40:39.986][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-20 05:40:39.988][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-20 05:40:39.990][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-20 05:40:39.992][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-20 05:40:39.994][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-20 05:40:39.996][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-20 05:40:39.998][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-20 05:40:40.000][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-20 05:40:40.002][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-20 05:40:40.004][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-20 05:40:40.006][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-20 05:40:40.008][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-20 05:40:40.010][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-20 05:40:40.012][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-20 05:40:40.014][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-20 05:40:40.016][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-20 05:40:40.018][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-20 05:40:40.020][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-20 05:40:40.022][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-20 05:40:40.024][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-20 05:40:40.026][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-20 05:40:40.028][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-20 05:40:40.030][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-20 05:40:40.032][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-20 05:40:40.034][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-20 05:40:40.036][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-20 05:40:40.038][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-20 05:40:40.040][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-20 05:40:40.042][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-20 05:40:40.044][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-20 05:40:40.046][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-20 05:40:40.048][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-20 05:40:40.050][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-20 05:40:40.052][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-20 05:40:40.054][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-20 05:40:40.056][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-20 05:40:40.058][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-20 05:40:40.060][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-20 05:40:40.062][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-20 05:40:40.072][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-20 05:40:40.074][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-20 05:40:40.076][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-20 05:40:40.078][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-20 05:40:40.080][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-20 05:40:40.082][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-20 05:40:40.084][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-20 05:40:40.086][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-20 05:40:40.088][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-20 05:40:40.090][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-20 05:40:40.092][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-20 05:40:40.094][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-20 05:40:40.096][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-20 05:40:40.099][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-20 05:40:40.101][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-20 05:40:40.103][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-20 05:40:40.105][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-20 05:40:40.107][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-20 05:40:40.109][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-20 05:40:40.111][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-20 05:40:40.113][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-20 05:40:40.115][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-20 05:40:40.117][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-20 05:40:40.119][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-20 05:40:40.121][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-20 05:40:40.123][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-20 05:40:40.125][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-20 05:40:40.127][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-20 05:40:40.129][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-20 05:40:40.131][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-20 05:40:40.133][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-20 05:40:40.136][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-20 05:40:40.138][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-20 05:40:40.140][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-20 05:40:40.142][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-20 05:40:40.144][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-20 05:40:40.145][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.147][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.167][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[2024-11-20 05:40:40.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.228][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[2024-11-20 05:40:40.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:40.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:40.316][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-20 05:40:40.318][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:40.322][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:40.323][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-20 05:40:40.325][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:40.326][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:40.328][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:40.330][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-20 05:40:40.331][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:40.333][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:40.334][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-20 05:40:40.336][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:40.337][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:40.339][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-20 05:40:40.341][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-20 05:40:40.342][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-20 05:40:40.344][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:40.345][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-20 05:40:40.345][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-20 05:40:40.345][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-20 05:40:40.347][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-20 05:40:40.348][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:40.350][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:40.351][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:40.353][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:40.354][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:40.356][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:40.357][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-20 05:40:40.357][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-20 05:40:40.359][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:40.360][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:40.361][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:40.363][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:40.365][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-20 05:40:40.368][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-20 05:40:40.370][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-20 05:40:40.373][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-20 05:40:40.375][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-20 05:40:40.396][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:40.398][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-20 05:40:40.400][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:40.402][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-20 05:40:40.404][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:40.406][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:40.408][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-20 05:40:40.410][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-20 05:40:40.411][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-20 05:40:40.411][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-20 05:40:40.413][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:40.414][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:40.416][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-20 05:40:40.417][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-20 05:40:40.418][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:40.421][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-20 05:40:40.423][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:40.424][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:40.426][private$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[2024-11-20 05:40:40.428][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:40.430][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-20 05:40:40.432][biodb::testThat]
biodb.INFO [2024-11-20 05:40:40.433][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-11-20 05:40:40.435][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:40.436][biodb::testThat]
biodb.DEBUG[2024-11-20 05:40:40.441][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:40.444][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:40.446][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-20 05:40:40.448][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:40.449][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-20 05:40:40.451][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-20 05:40:40.453][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-20 05:40:40.454][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-20 05:40:40.456][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-20 05:40:40.460][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-11-20 05:40:40.467][biodb::testThat]
biodb.INFO [2024-11-20 05:40:40.469][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-11-20 05:40:40.470][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:40.472][biodb::testThat]
biodb.DEBUG[2024-11-20 05:40:40.474][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-11-20 05:40:40.476][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-20 05:40:40.478][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:40.480][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-20 05:40:40.483][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-11-20 05:40:40.485][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-20 05:40:40.488][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-20 05:40:40.490][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-20 05:40:40.492][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-20 05:40:40.493][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-20 05:40:40.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:40.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:40.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:40.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:40.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:40.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:40.508][FUN] Functions in observer BiodbConfig: [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[2024-11-20 05:40:40.513][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:40.514][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:40.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.517][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:40.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:40.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.524][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:40.526][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:40.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.528][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.530][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:40.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:40.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.536][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:40.537][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:40.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.540][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.542][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:40.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:40.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.548][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:40.549][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:40.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.552][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.562][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:40.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:40.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.568][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:40.569][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:40.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.572][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:40.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:40.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.579][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:40.580][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:40.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.583][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:40.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:40.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.590][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:40.592][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:40.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.594][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.596][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:40.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:40.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.602][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:40.604][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:40.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.607][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.609][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:40.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:40.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.614][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:40.616][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:40.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.618][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.620][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:40.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:40.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.626][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:40.628][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:40.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.630][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.632][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:40.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:40.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.638][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:40.639][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:40.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.642][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.644][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:40.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.649][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:40.651][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:40.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.653][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:40.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:40.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.661][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:40.662][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:40.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.665][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:40.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:40.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.672][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:40.674][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:40.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.676][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:40.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:40.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.684][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:40.685][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:40.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.688][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.690][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:40.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:40.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.695][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:40.697][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:40.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.699][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.701][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:40.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:40.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.714][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:40.716][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:40.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.719][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.721][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:40.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:40.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.726][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-20 05:40:40.728][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:40.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.730][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.732][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-20 05:40:40.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:40.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:40.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:40.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:40.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:40.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:40.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:40.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.754][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:40.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:40.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.760][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:40.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:40.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.765][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:40.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:40.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.771][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:40.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:40.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.776][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:40.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:40.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.781][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:40.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:40.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:40.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:40.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:40.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:40.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:40.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:40.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:40.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:40.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:40.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:40.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:40.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:40.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.821][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:40.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:40.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.826][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:40.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:40.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.832][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:40.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:40.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.837][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:40.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:40.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.843][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:40.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:40.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.848][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:40.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:40.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.861][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:40.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:40.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.868][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:40.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:40.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.873][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:40.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:40.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.879][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:40.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:40.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.884][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:40.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:40.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.890][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:40.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:40.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.896][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:40.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:40.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.901][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:40.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:40.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.907][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:40.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:40.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:40.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:40.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:40.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:40.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:40.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:40.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:40.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:40.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:40.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:40.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:40.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:40.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.946][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:40.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:40.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:40.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:40.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.957][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:40.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:40.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:40.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:40.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:40.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:40.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:40.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:40.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:40.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:40.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.985][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:40.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:40.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.990][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:40.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:40.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:40.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:40.996][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:40.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:40.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.001][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:41.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:41.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.015][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:41.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:41.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.021][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:41.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:41.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.027][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:41.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:41.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.032][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:41.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:41.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.038][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:41.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:41.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.044][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:41.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:41.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.049][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:41.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:41.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.055][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-20 05:40:41.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:41.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:41.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:41.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:41.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:41.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:41.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:41.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.077][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-20 05:40:41.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:41.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:41.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:41.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:41.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:41.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.096][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:41.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:41.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.101][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:41.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:41.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.107][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:41.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:41.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.112][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:41.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:41.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.118][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:41.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:41.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:41.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:41.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.129][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:41.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:41.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:41.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:41.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:41.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:41.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:41.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:41.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:41.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:41.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:41.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:41.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:41.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:41.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:41.177][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-11-20 05:40:41.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:41.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:41.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:41.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:41.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:41.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:41.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:41.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:41.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-20 05:40:41.202][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-20 05:40:41.204][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-20 05:40:41.206][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-20 05:40:41.207][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-20 05:40:41.208][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.210][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.213][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-20 05:40:41.219][biodb::testContext]
biodb.INFO [2024-11-20 05:40:41.221][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-20 05:40:41.222][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-11-20 05:40:41.223][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-20 05:40:41.225][biodb::testContext]
biodb.INFO [2024-11-20 05:40:41.230][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-20 05:40:41.232][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-11-20 05:40:41.237][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-20 05:40:41.238][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-20 05:40:41.240][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-20 05:40:41.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.245][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-20 05:40:41.247][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-20 05:40:41.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.252][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-20 05:40:41.253][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-20 05:40:41.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.258][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-20 05:40:41.260][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-20 05:40:41.261][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-20 05:40:41.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.267][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-20 05:40:41.268][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-20 05:40:41.269][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-20 05:40:41.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.275][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-20 05:40:41.276][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-20 05:40:41.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.281][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-20 05:40:41.283][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-20 05:40:41.284][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-20 05:40:41.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.289][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-20 05:40:41.291][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-20 05:40:41.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.296][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-20 05:40:41.297][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-20 05:40:41.299][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-20 05:40:41.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.304][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-20 05:40:41.305][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-20 05:40:41.307][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-20 05:40:41.316][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-20 05:40:41.318][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-20 05:40:41.320][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-20 05:40:41.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.325][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-20 05:40:41.326][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-20 05:40:41.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.332][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-20 05:40:41.333][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-20 05:40:41.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.339][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-20 05:40:41.340][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-20 05:40:41.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.344][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[2024-11-20 05:40:41.345][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-20 05:40:41.347][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-20 05:40:41.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.352][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-20 05:40:41.354][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-20 05:40:41.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.359][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-20 05:40:41.360][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-20 05:40:41.365][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-20 05:40:41.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.371][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-20 05:40:41.372][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-20 05:40:41.373][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-20 05:40:41.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.379][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-20 05:40:41.381][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.383][self$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[2024-11-20 05:40:41.384][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.386][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:41.387][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.388][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.390][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.391][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.393][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-20 05:40:41.394][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:41.396][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.397][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-20 05:40:41.398][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:41.400][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.401][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.403][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-20 05:40:41.403][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-20 05:40:41.403][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-20 05:40:41.403][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-20 05:40:41.403][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-20 05:40:41.404][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:41.405][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:41.407][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:41.408][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:41.409][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:41.411][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:41.412][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.414][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.415][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:41.416][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:41.418][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.419][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.421][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-20 05:40:41.423][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.425][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-20 05:40:41.426][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.428][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:41.429][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.431][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.432][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.434][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.435][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-20 05:40:41.437][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:41.438][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.440][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-20 05:40:41.441][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:41.443][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.444][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.445][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-20 05:40:41.445][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-20 05:40:41.445][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-20 05:40:41.445][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-20 05:40:41.445][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-20 05:40:41.447][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:41.448][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:41.450][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:41.451][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:41.453][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:41.454][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:41.455][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.457][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.458][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:41.460][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:41.461][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.470][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.472][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-20 05:40:41.475][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.477][self$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[2024-11-20 05:40:41.478][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.480][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:41.481][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.483][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.484][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.486][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.488][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-20 05:40:41.489][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:41.491][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.492][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-20 05:40:41.494][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:41.496][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.497][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.498][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.500][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:41.501][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:41.502][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:41.504][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:41.505][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:41.506][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:41.508][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.509][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.510][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:41.512][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:41.513][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.514][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.516][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-20 05:40:41.518][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.520][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-20 05:40:41.521][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.523][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:41.524][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.525][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.527][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.528][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.529][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-20 05:40:41.531][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:41.532][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.534][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-20 05:40:41.535][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:41.537][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.538][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:41.539][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.541][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-20 05:40:41.542][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:41.543][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:41.545][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:41.546][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:41.547][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:41.549][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:41.550][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.551][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:41.553][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:41.554][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:41.555][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:41.557][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-20 05:40:41.558][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.675][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-20 05:40:41.677][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-20 05:40:41.679][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-20 05:40:41.681][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-20 05:40:41.683][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-20 05:40:41.685][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-20 05:40:41.687][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-20 05:40:41.689][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-20 05:40:41.691][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-20 05:40:41.693][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-20 05:40:41.695][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-20 05:40:41.697][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-20 05:40:41.699][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-20 05:40:41.701][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-20 05:40:41.703][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-20 05:40:41.705][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-20 05:40:41.707][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-20 05:40:41.709][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-20 05:40:41.710][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-20 05:40:41.713][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-20 05:40:41.715][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-20 05:40:41.717][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-20 05:40:41.718][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-20 05:40:41.720][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-20 05:40:41.722][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-20 05:40:41.724][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-20 05:40:41.726][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-20 05:40:41.728][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-20 05:40:41.730][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-20 05:40:41.732][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-20 05:40:41.734][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-20 05:40:41.736][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-20 05:40:41.738][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-20 05:40:41.740][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-20 05:40:41.742][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-20 05:40:41.744][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-20 05:40:41.746][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-20 05:40:41.748][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-20 05:40:41.750][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-20 05:40:41.752][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-20 05:40:41.762][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-20 05:40:41.764][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-20 05:40:41.766][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-20 05:40:41.768][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-20 05:40:41.770][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-20 05:40:41.772][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-20 05:40:41.774][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-20 05:40:41.776][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-20 05:40:41.778][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-20 05:40:41.780][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-20 05:40:41.782][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-20 05:40:41.784][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-20 05:40:41.786][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-20 05:40:41.788][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-20 05:40:41.790][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-20 05:40:41.792][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-20 05:40:41.794][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-20 05:40:41.795][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-20 05:40:41.797][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-20 05:40:41.799][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-20 05:40:41.801][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-20 05:40:41.803][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-20 05:40:41.805][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-20 05:40:41.807][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-20 05:40:41.809][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-20 05:40:41.811][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-20 05:40:41.813][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-20 05:40:41.815][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-20 05:40:41.817][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-20 05:40:41.820][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-20 05:40:41.822][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-20 05:40:41.824][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-20 05:40:41.826][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-20 05:40:41.828][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-20 05:40:41.830][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-20 05:40:41.832][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-20 05:40:41.834][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-20 05:40:41.836][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-20 05:40:41.838][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-20 05:40:41.840][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-20 05:40:41.842][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-20 05:40:41.844][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-20 05:40:41.846][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-20 05:40:41.848][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-20 05:40:41.850][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-20 05:40:41.852][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-20 05:40:41.853][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.856][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.857][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[2024-11-20 05:40:41.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:41.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:41.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:41.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:41.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:41.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:41.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:41.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:42.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:42.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:42.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:42.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:42.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:42.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:42.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:42.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:42.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:42.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:42.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:42.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:42.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:42.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:42.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:42.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:42.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:42.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:42.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:42.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:42.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:42.029][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[2024-11-20 05:40:42.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-20 05:40:42.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:42.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:42.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:42.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:42.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:42.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:42.041][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-20 05:40:42.043][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:42.046][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:42.048][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-20 05:40:42.050][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:42.051][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-20 05:40:42.053][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:42.054][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-20 05:40:42.056][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:42.057][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-20 05:40:42.059][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-20 05:40:42.060][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-20 05:40:42.062][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:42.063][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-20 05:40:42.065][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-20 05:40:42.066][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-20 05:40:42.076][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-20 05:40:42.078][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-20 05:40:42.078][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-20 05:40:42.078][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-20 05:40:42.079][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-20 05:40:42.081][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:42.082][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:42.084][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-20 05:40:42.085][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-20 05:40:42.086][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-20 05:40:42.088][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-20 05:40:42.089][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-20 05:40:42.089][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-20 05:40:42.091][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:42.092][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:42.093][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-20 05:40:42.095][self$setPropertyValue]
biodb.DEBUG[2024-11-20 05:40:42.097][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-20 05:40:42.099][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-20 05:40:42.102][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-20 05:40:42.104][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-20 05:40:42.107][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-20 05:40:42.112][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:42.113][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-20 05:40:42.115][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:42.118][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-20 05:40:42.120][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:42.121][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:42.123][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-20 05:40:42.125][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-20 05:40:42.126][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-20 05:40:42.126][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-20 05:40:42.128][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-20 05:40:42.129][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-20 05:40:42.130][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-20 05:40:42.131][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-20 05:40:42.133][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-20 05:40:42.135][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-20 05:40:42.137][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:42.138][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:42.140][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-20 05:40:42.142][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-20 05:40:42.144][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-20 05:40:42.146][biodb::testThat]
biodb.INFO [2024-11-20 05:40:42.147][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-11-20 05:40:42.148][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-20 05:40:42.150][biodb::testThat]
biodb.DEBUG[2024-11-20 05:40:42.153][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-20 05:40:42.154][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-11-20 05:40:42.156][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-11-20 05:40:42.160][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:42.162][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:42.164][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-20 05:40:42.166][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:42.167][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-20 05:40:42.169][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-20 05:40:42.170][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-20 05:40:42.172][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-20 05:40:42.173][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-20 05:40:42.175][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-20 05:40:42.176][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-11-20 05:40:42.179][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-11-20 05:40:42.180][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-20 05:40:42.182][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:42.184][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-20 05:40:42.187][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-11-20 05:40:42.189][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-20 05:40:42.191][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-11-20 05:40:42.193][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-20 05:40:42.195][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-20 05:40:42.196][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-20 05:40:42.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:42.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:42.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:42.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:42.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:42.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:42.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-20 05:40:42.217][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.219][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.221][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.237][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.239][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.241][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.243][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.249][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.250][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.253][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.255][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.260][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:42.262][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:42.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.264][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.266][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:42.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:42.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.272][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:42.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:42.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.275][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:42.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:42.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.283][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:42.284][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:42.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.287][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:42.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:42.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.294][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:42.295][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:42.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.298][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.300][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:42.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:42.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.305][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:42.307][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:42.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.309][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.311][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:42.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:42.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.317][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:42.318][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:42.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.321][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.322][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:42.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:42.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.328][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:42.329][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:42.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.332][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.334][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:42.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:42.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.339][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:42.341][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:42.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.343][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.345][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:42.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:42.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.350][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:42.352][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:42.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.354][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.356][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:42.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:42.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.362][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.363][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.366][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.381][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:42.383][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:42.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.385][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:42.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:42.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.393][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:42.394][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:42.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.397][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:42.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:42.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.404][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:42.406][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:42.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.408][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.410][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:42.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:42.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.415][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:42.417][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:42.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.419][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.421][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:42.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:42.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.426][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-20 05:40:42.428][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:42.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.430][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.432][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-20 05:40:42.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:42.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.454][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.459][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.464][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.470][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:42.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:42.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.475][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:42.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:42.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.480][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:42.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:42.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:42.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:42.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:42.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:42.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:42.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:42.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:42.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:42.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:42.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:42.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:42.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:42.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.532][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:42.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:42.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.538][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:42.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:42.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.543][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:42.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:42.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.549][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:42.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:42.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.555][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:42.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:42.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.560][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:42.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:42.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.566][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:42.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:42.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.571][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:42.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:42.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.577][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:42.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:42.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.582][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:42.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:42.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.588][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:42.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:42.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.593][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:42.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:42.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.599][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:42.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:42.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.605][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:42.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:42.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.610][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:42.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:42.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:42.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:42.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:42.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:42.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:42.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.632][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.638][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.649][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:42.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:42.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.655][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:42.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:42.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.661][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:42.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:42.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:42.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:42.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:42.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:42.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:42.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:42.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.693][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:42.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:42.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.698][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:42.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:42.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.704][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:42.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:42.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.710][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:42.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:42.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.715][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:42.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:42.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.721][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:42.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:42.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.727][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.732][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.738][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:42.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:42.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.749][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:42.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:42.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.755][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:42.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:42.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.761][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-20 05:40:42.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.783][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-20 05:40:42.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:42.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:42.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:42.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:42.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:42.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:42.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:42.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.807][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:42.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:42.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.813][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:42.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:42.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.826][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:42.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:42.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.833][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:42.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:42.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.845][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:42.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:42.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:42.885][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-20 05:40:42.886][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:42.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:42.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.892][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:42.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:42.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.897][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:42.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:42.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.903][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:42.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:42.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:42.909][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-20 05:40:42.910][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-20 05:40:42.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:42.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:42.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:42.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:42.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:42.923][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:42.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-20 05:40:42.926][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-11-20 05:40:42.927][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-20 05:40:42.930][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:42.932][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-20 05:40:42.935][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-11-20 05:40:42.936][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-20 05:40:42.938][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-20 05:40:42.940][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-20 05:40:42.942][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-20 05:40:42.943][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-20 05:40:42.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:42.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:42.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:42.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:42.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:42.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:42.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-20 05:40:42.963][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.964][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.967][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:42.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:42.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.974][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.984][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.987][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.989][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:42.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:42.995][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.996][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:42.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:42.999][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.001][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:43.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:43.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.007][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:43.008][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:43.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.011][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.012][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:43.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:43.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.018][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:43.020][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:43.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.022][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:43.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:43.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.030][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:43.031][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:43.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.034][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:43.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:43.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.041][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:43.043][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:43.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.045][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.047][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:43.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:43.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.053][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:43.055][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:43.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.057][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.059][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:43.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:43.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.065][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:43.066][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:43.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.069][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.071][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:43.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:43.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.077][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:43.078][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:43.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.081][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.083][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:43.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:43.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.088][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:43.090][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:43.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.093][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.094][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:43.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:43.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.100][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:43.101][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:43.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.104][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:43.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:43.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.112][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.113][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.116][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.123][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:43.125][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:43.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.127][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:43.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:43.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.143][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:43.145][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:43.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.148][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.149][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:43.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:43.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.155][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.156][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.159][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.160][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.166][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:43.168][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:43.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.170][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.172][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:43.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:43.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.178][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-20 05:40:43.179][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:43.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.182][ef$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.184][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-20 05:40:43.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:43.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:43.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:43.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:43.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:43.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:43.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:43.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.207][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:43.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:43.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.212][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:43.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:43.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.218][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-20 05:40:43.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-20 05:40:43.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.224][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:43.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:43.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.229][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:43.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:43.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.235][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-20 05:40:43.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-20 05:40:43.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:43.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:43.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:43.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:43.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-20 05:40:43.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-20 05:40:43.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:43.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:43.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:43.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:43.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:43.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-20 05:40:43.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.276][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:43.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:43.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.289][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:43.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:43.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.296][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:43.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-20 05:40:43.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.302][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:43.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:43.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.307][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:43.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:43.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.313][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:43.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-20 05:40:43.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.319][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:43.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:43.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.325][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:43.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:43.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.331][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:43.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-20 05:40:43.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.336][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.342][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.348][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.354][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:43.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:43.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.360][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:43.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:43.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.366][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-20 05:40:43.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-20 05:40:43.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.373][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:43.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:43.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.378][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:43.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:43.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-20 05:40:43.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-20 05:40:43.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.396][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.407][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:43.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:43.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.413][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:43.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:43.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.418][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:43.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-20 05:40:43.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:43.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:43.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:43.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:43.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:43.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-20 05:40:43.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:43.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:43.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:43.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:43.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.460][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:43.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:43.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.466][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:43.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:43.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.471][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:43.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:43.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.477][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:43.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-20 05:40:43.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.482][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:43.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:43.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.487][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:43.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:43.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.493][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:43.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-20 05:40:43.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.498][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:43.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:43.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.503][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:43.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:43.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.509][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-20 05:40:43.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-20 05:40:43.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.514][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-20 05:40:43.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.519][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.536][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-20 05:40:43.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-20 05:40:43.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.542][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:43.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:43.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.548][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:43.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:43.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.553][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:43.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:43.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:43.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:43.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-20 05:40:43.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-20 05:40:43.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.570][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:43.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:43.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.575][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:43.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:43.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:43.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:43.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.595][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:43.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-20 05:40:43.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:43.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:43.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:43.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:43.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:43.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:43.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:43.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:43.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:43.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:43.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-20 05:40:43.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-20 05:40:43.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:43.633][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-11-20 05:40:43.635][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.640][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.646][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.651][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:43.656][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-20 05:40:43.658][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-11-20 05:40:43.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:43.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:43.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:43.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:43.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:43.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:43.672][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[2024-11-20 05:40:43.679][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-20 05:40:43.680][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-11-20 05:40:43.682][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-11-20 05:40:43.684][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:43.686][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:43.688][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-20 05:40:43.690][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:43.691][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-20 05:40:43.693][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-20 05:40:43.694][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-20 05:40:43.696][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-20 05:40:43.697][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-20 05:40:43.698][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-20 05:40:43.700][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-20 05:40:43.702][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.708][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.714][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.719][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.725][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.738][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.744][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:43.750][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-20 05:40:43.751][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-20 05:40:43.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:43.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:43.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:43.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:43.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:43.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:43.765][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[2024-11-20 05:40:43.767][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.772][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.778][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.783][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.789][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.795][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.800][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:43.806][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-11-20 05:40:43.807][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-20 05:40:43.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:43.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:43.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:43.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:43.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:43.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:43.821][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[2024-11-20 05:40:43.828][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-20 05:40:43.829][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-11-20 05:40:43.830][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-11-20 05:40:43.833][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:43.835][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:43.836][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-20 05:40:43.838][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-20 05:40:43.840][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-20 05:40:43.841][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-20 05:40:43.843][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-20 05:40:43.844][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-20 05:40:43.846][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-20 05:40:43.847][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-20 05:40:43.848][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-20 05:40:43.851][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.856][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.862][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.867][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.873][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.879][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.892][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:43.898][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-11-20 05:40:43.899][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-11-20 05:40:43.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:43.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:43.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:43.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:43.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:43.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:43.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-20 05:40:43.914][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.920][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.930][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.936][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.942][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.948][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-20 05:40:43.954][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-20 05:40:43.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-20 05:40:43.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-20 05:40:43.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-20 05:40:43.960][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-20 05:40:43.962][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-20 05:40:43.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-20 05:40:43.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:43.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:43.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:43.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:43.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:43.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-20 05:40:43.988][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-20 05:40:43.990][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-20 05:40:43.992][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-20 05:40:43.993][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-20 05:40:43.994][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-20 05:40:43.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-20 05:40:43.997][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-20 05:40:43.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-20 05:40:43.999][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-20 05:40:44.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
12.403 0.425 31.280