Pierrick Roger
| Snapshot Date: 2024-11-04 13:40 -0500 (Mon, 04 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 2024-11-05 12:08 -0500 (Tue, 05 Nov 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4503 |
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4763 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4506 |
| 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 | ERROR | 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: 2024-11-05 05:52:51 -0000 (Tue, 05 Nov 2024) |
| EndedAt: 2024-11-05 05:56:41 -0000 (Tue, 05 Nov 2024) |
| EllapsedTime: 229.3 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 [2024-11-05 05:56:13.195][biodb::testContext]
biodb.INFO [2024-11-05 05:56:13.198][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-05 05:56:13.200][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-11-05 05:56:13.201][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-05 05:56:13.202][biodb::testContext]
biodb.INFO [2024-11-05 05:56:13.205][biodb::testThat]
biodb.INFO [2024-11-05 05:56:13.206][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-11-05 05:56:13.208][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:13.209][biodb::testThat]
biodb.INFO [2024-11-05 05:56:13.350][biodb::testContext]
biodb.INFO [2024-11-05 05:56:13.351][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-05 05:56:13.353][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-11-05 05:56:13.354][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-05 05:56:13.356][biodb::testContext]
biodb.INFO [2024-11-05 05:56:13.368][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-05 05:56:13.371][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-11-05 05:56:13.391][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-05 05:56:13.393][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-05 05:56:13.395][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-05 05:56:13.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.400][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-05 05:56:13.428][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-05 05:56:13.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.433][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-05 05:56:13.435][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-05 05:56:13.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.440][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-05 05:56:13.442][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-05 05:56:13.443][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-05 05:56:13.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.448][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-05 05:56:13.450][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-05 05:56:13.451][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-05 05:56:13.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.457][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-05 05:56:13.458][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-05 05:56:13.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.463][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-05 05:56:13.465][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-05 05:56:13.466][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-05 05:56:13.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.472][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-05 05:56:13.473][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-05 05:56:13.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.479][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-05 05:56:13.480][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-05 05:56:13.482][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-05 05:56:13.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.487][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-05 05:56:13.488][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-05 05:56:13.490][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-05 05:56:13.491][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-05 05:56:13.493][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-05 05:56:13.494][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-05 05:56:13.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.499][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-05 05:56:13.501][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-05 05:56:13.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.506][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-05 05:56:13.508][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-05 05:56:13.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.513][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-05 05:56:13.515][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-05 05:56:13.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.520][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-05 05:56:13.521][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-05 05:56:13.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.527][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-05 05:56:13.529][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-05 05:56:13.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.534][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-05 05:56:13.536][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-05 05:56:13.541][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-05 05:56:13.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.545][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[2024-11-05 05:56:13.546][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-05 05:56:13.548][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-05 05:56:13.549][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-05 05:56:13.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.558][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-05 05:56:13.609][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.633][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-05 05:56:13.635][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.637][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:13.638][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.650][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.651][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.653][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.654][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-05 05:56:13.656][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:13.658][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.659][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-05 05:56:13.661][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:13.662][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.664][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.665][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-05 05:56:13.665][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-05 05:56:13.665][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-05 05:56:13.665][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-05 05:56:13.665][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-05 05:56:13.667][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:13.668][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:13.669][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:13.671][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:13.672][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:13.674][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:13.675][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.677][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.678][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:13.679][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:13.681][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.682][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.684][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-05 05:56:13.686][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.688][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-05 05:56:13.689][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.691][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:13.692][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.693][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.695][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.696][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.698][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-05 05:56:13.699][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:13.700][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.702][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-05 05:56:13.703][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:13.705][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.706][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.708][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-05 05:56:13.708][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-05 05:56:13.708][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-05 05:56:13.708][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-05 05:56:13.708][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-05 05:56:13.709][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:13.711][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:13.712][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:13.713][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:13.715][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:13.716][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:13.718][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.719][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.721][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:13.722][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:13.723][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.725][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.727][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-05 05:56:13.730][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.736][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-05 05:56:13.738][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.740][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:13.741][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.743][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.744][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.746][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.747][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-05 05:56:13.748][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:13.750][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.751][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-05 05:56:13.753][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:13.754][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.755][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.757][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.758][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:13.760][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:13.761][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:13.762][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:13.764][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:13.765][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:13.766][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.768][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.769][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:13.770][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:13.772][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.773][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.775][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-05 05:56:13.778][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.779][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-05 05:56:13.781][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.782][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:13.783][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.785][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.786][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.788][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.789][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-05 05:56:13.790][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:13.792][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.793][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-05 05:56:13.795][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:13.796][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.798][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:13.799][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.800][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:13.802][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:13.803][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:13.804][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:13.806][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:13.807][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:13.808][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:13.810][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.811][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:13.812][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:13.814][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:13.815][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:13.821][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-05 05:56:13.822][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.849][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[2024-11-05 05:56:13.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.855][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[2024-11-05 05:56:13.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.887][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[2024-11-05 05:56:13.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:13.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:13.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:13.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:13.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:13.943][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[2024-11-05 05:56:13.945][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-05 05:56:13.951][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-05 05:56:13.953][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-05 05:56:13.955][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-05 05:56:13.957][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-05 05:56:13.959][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-05 05:56:13.961][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-05 05:56:13.963][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-05 05:56:13.965][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-05 05:56:13.967][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-05 05:56:13.970][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-05 05:56:13.972][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-05 05:56:13.974][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-05 05:56:13.976][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-05 05:56:13.978][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-05 05:56:13.980][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-05 05:56:13.982][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-05 05:56:13.984][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-05 05:56:13.986][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-05 05:56:13.988][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-05 05:56:13.990][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-05 05:56:13.992][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-05 05:56:13.994][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-05 05:56:13.996][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-05 05:56:13.998][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-05 05:56:13.999][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-05 05:56:14.001][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-05 05:56:14.003][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-05 05:56:14.005][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-05 05:56:14.007][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-05 05:56:14.009][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-05 05:56:14.011][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-05 05:56:14.013][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-05 05:56:14.015][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-05 05:56:14.017][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-05 05:56:14.019][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-05 05:56:14.021][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-05 05:56:14.022][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-05 05:56:14.024][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-05 05:56:14.026][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-05 05:56:14.028][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-05 05:56:14.030][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-05 05:56:14.032][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-05 05:56:14.034][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-05 05:56:14.036][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-05 05:56:14.038][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-05 05:56:14.040][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-05 05:56:14.042][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-05 05:56:14.044][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-05 05:56:14.045][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-05 05:56:14.047][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-05 05:56:14.049][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-05 05:56:14.051][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-05 05:56:14.053][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-05 05:56:14.055][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-05 05:56:14.057][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-05 05:56:14.059][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-05 05:56:14.061][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-05 05:56:14.063][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-05 05:56:14.065][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-05 05:56:14.067][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-05 05:56:14.069][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-05 05:56:14.070][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-05 05:56:14.072][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-05 05:56:14.074][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-05 05:56:14.076][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-05 05:56:14.078][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-05 05:56:14.080][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-05 05:56:14.082][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-05 05:56:14.084][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-05 05:56:14.086][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-05 05:56:14.088][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-05 05:56:14.090][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-05 05:56:14.092][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-05 05:56:14.094][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-05 05:56:14.096][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-05 05:56:14.098][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-05 05:56:14.100][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-05 05:56:14.102][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-05 05:56:14.104][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-05 05:56:14.105][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-05 05:56:14.107][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-05 05:56:14.109][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-05 05:56:14.118][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-05 05:56:14.120][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-05 05:56:14.124][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-05 05:56:14.125][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.128][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.184][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[2024-11-05 05:56:14.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.264][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[2024-11-05 05:56:14.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.280][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[2024-11-05 05:56:14.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:14.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:14.291][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-05 05:56:14.305][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:14.308][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:14.309][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-05 05:56:14.311][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:14.312][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:14.313][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:14.315][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-05 05:56:14.316][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:14.317][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:14.319][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-05 05:56:14.320][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:14.321][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:14.323][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-05 05:56:14.324][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-05 05:56:14.325][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-05 05:56:14.327][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:14.328][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-05 05:56:14.328][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-05 05:56:14.328][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-05 05:56:14.329][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-05 05:56:14.331][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:14.332][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:14.333][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:14.334][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:14.335][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:14.337][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:14.338][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-05 05:56:14.338][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-05 05:56:14.339][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:14.340][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:14.342][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:14.343][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:14.352][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-05 05:56:14.354][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-05 05:56:14.356][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-05 05:56:14.358][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-05 05:56:14.360][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-05 05:56:14.390][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:14.392][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-05 05:56:14.397][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:14.454][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-05 05:56:14.459][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:14.461][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:14.463][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-05 05:56:14.464][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-05 05:56:14.465][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-05 05:56:14.465][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-05 05:56:14.467][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:14.468][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:14.469][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-05 05:56:14.471][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-05 05:56:14.472][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:14.497][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-05 05:56:14.499][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:14.500][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:14.502][private$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[2024-11-05 05:56:14.504][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:14.505][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-05 05:56:14.515][biodb::testThat]
biodb.INFO [2024-11-05 05:56:14.517][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-11-05 05:56:14.518][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:14.519][biodb::testThat]
biodb.TRACE[2024-11-05 05:56:14.526][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[2024-11-05 05:56:14.528][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-05 05:56:14.532][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-05 05:56:14.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:14.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:14.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:14.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:14.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:14.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:14.555][FUN] Functions in observer BiodbConfig: [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[2024-11-05 05:56:14.570][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:14.571][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:14.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.574][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:14.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:14.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.598][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:14.600][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:14.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.602][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.641][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:14.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:14.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.646][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:14.648][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:14.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.650][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.652][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:14.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:14.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.658][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:14.659][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:14.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.662][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.664][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:14.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:14.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.681][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:14.683][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:14.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.685][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:14.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:14.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.693][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:14.695][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:14.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.698][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:14.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:14.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.706][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:14.707][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:14.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.710][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.712][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:14.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:14.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.718][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:14.719][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:14.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.722][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.724][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:14.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:14.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.730][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:14.731][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:14.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.734][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.736][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:14.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:14.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.742][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:14.744][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:14.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.746][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.748][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:14.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:14.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.754][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:14.756][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:14.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.759][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.760][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:14.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:14.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.766][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:14.768][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:14.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.771][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:14.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:14.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.778][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:14.780][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:14.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.783][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:14.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:14.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.791][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:14.792][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:14.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.795][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:14.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:14.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.803][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:14.805][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:14.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.807][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.809][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:14.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:14.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.815][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:14.817][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:14.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.819][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.821][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:14.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:14.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.827][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:14.829][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:14.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.831][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.834][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:14.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:14.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.840][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-05 05:56:14.841][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:14.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.844][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.846][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-05 05:56:14.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:14.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:14.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:14.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:14.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:14.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:14.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:14.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.930][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:14.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:14.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.936][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:14.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:14.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.942][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:14.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:14.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.949][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:14.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:14.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.955][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:14.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:14.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.961][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:14.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:14.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:14.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:14.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:14.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:14.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:14.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:14.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:14.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:14.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:14.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:14.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:14.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:14.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:14.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:14.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.000][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.006][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.011][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.017][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:15.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:15.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.022][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:15.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:15.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.028][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:15.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:15.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.034][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.040][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.045][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.051][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:15.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:15.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.057][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:15.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:15.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.062][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:15.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:15.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.068][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:15.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:15.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.074][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:15.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:15.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.079][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:15.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:15.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.085][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:15.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:15.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.097][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:15.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:15.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.102][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:15.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:15.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.124][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.129][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.135][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.157][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.162][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.168][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.173][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.179][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.184][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.190][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.196][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.201][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.207][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:15.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:15.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.213][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:15.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:15.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.218][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:15.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:15.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.224][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-05 05:56:15.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.246][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-05 05:56:15.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:15.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.278][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.283][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.312][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.317][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.328][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:15.366][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-05 05:56:15.369][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-05 05:56:15.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-05 05:56:15.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.374][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-05 05:56:15.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-05 05:56:15.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.380][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-05 05:56:15.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-05 05:56:15.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.385][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-05 05:56:15.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-05 05:56:15.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.420][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.465][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.471][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.476][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:15.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.515][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.516][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.519][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:15.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:15.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.536][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.542][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.547][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.553][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.554][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.557][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.558][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:15.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:15.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:15.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:15.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:15.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:15.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:15.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.590][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:15.591][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:15.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.594][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:15.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:15.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.610][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.616][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.621][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.627][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.628][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.631][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.632][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:15.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:15.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:15.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:15.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:15.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:15.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:15.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.664][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:15.665][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:15.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.668][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:15.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:15.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.685][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.698][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.704][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.709][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.711][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.713][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.715][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:15.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.736][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.747][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.748][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.751][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:15.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:15.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.767][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:15.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:15.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.773][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:15.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:15.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.778][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:15.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:15.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.784][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:15.785][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:15.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.787][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.789][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:15.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:15.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.804][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:15.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:15.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.810][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:15.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:15.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.815][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:15.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:15.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.820][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:15.822][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:15.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.824][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.826][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:15.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:15.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.842][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:15.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:15.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.847][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:15.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:15.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.852][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:15.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:15.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.858][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:15.859][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:15.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.862][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.863][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:15.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:15.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.903][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.904][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.907][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:15.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.925][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.931][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.943][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.944][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.947][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.948][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:15.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.965][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.970][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.976][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.982][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.983][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.986][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:15.987][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:15.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:15.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.003][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.009][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.015][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.021][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.022][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.025][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.026][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.043][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:16.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:16.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.049][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:16.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:16.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.054][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:16.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:16.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.060][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:16.061][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:16.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.064][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.066][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:16.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:16.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:16.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:16.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:16.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:16.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.102][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:16.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:16.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.108][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:16.110][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:16.111][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.113][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:16.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:16.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.148][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.149][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.152][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.153][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.169][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.175][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.180][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.186][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.187][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.190][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.192][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.208][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:16.210][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:16.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.213][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.219][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.221][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.224][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.230][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.232][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.235][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.243][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.246][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.253][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.255][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.258][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.264][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.266][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.275][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.277][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.280][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.287][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:16.288][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:16.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.291][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.298][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:16.299][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:16.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.310][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.316][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:16.318][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:16.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.321][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.327][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:16.329][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:16.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.332][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.338][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.340][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.343][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.349][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:16.351][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:16.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.354][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.360][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:16.362][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:16.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.364][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.371][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:16.373][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:16.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.376][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.382][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:16.384][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:16.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.387][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.394][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:16.396][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:16.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.399][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.405][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:16.407][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:16.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.410][ef$get] fields variable is a list.
biodb.INFO [2024-11-05 05:56:16.421][biodb::testThat]
biodb.INFO [2024-11-05 05:56:16.423][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-11-05 05:56:16.424][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:16.426][biodb::testThat]
biodb.DEBUG[2024-11-05 05:56:16.447][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-11-05 05:56:16.456][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2024-11-05 05:56:16.461][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2024-11-05 05:56:16.463][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2024-11-05 05:56:16.464][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2024-11-05 05:56:16.466][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2024-11-05 05:56:16.468][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2024-11-05 05:56:16.469][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-11-05 05:56:16.472][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2024-11-05 05:56:16.474][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-11-05 05:56:16.476][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2024-11-05 05:56:16.478][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/markera6b25364c4dddmarker".
biodb.TRACE[2024-11-05 05:56:16.484][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2024-11-05 05:56:16.486][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-11-05 05:56:16.488][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-11-05 05:56:16.490][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2024-11-05 05:56:16.492][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2024-11-05 05:56:16.494][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-11-05 05:56:16.495][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2024-11-05 05:56:16.511][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2024-11-05 05:56:16.513][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2024-11-05 05:56:16.514][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2024-11-05 05:56:16.516][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2024-11-05 05:56:16.528][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2024-11-05 05:56:16.530][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-05 05:56:16.532][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-11-05 05:56:16.533][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2024-11-05 05:56:16.536][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/markera6b254b89601emarker".
biodb.TRACE[2024-11-05 05:56:16.537][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2024-11-05 05:56:16.539][self$addFilesToCache] Done adding files.
biodb.TRACE[2024-11-05 05:56:16.541][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-11-05 05:56:16.543][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-05 05:56:16.545][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-11-05 05:56:16.562][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-05 05:56:16.600][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-05 05:56:16.602][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-05 05:56:16.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:16.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:16.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:16.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:16.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:16.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:16.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-05 05:56:16.623][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:16.625][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:16.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.627][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:16.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:16.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.635][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:16.637][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:16.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.639][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.641][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:16.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:16.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.647][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.649][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.652][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.654][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.660][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.662][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.664][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.666][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.672][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.674][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.677][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.685][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.686][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.689][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.697][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:16.699][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:16.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.702][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.704][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:16.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:16.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.710][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:16.711][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:16.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.714][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.716][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:16.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:16.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.722][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.723][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.726][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.728][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.734][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.736][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.739][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.741][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.747][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:16.748][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:16.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.751][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:16.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:16.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.767][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:16.768][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:16.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.771][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:16.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:16.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.779][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.781][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.783][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:16.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.791][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:16.793][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:16.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.796][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:16.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:16.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.804][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:16.805][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:16.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.808][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.810][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:16.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:16.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.815][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:16.817][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:16.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.819][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.821][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:16.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:16.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.827][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:16.828][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:16.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.831][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.833][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:16.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:16.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.839][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-05 05:56:16.840][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:16.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.843][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.845][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-05 05:56:16.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:16.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:16.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:16.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:16.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:16.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:16.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:16.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.868][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.873][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.879][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:16.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.885][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.890][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.896][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:16.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:16.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:16.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.935][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.940][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.946][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:16.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.951][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.964][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.969][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:16.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.975][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:16.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:16.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.980][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:16.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:16.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.986][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:16.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:16.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.991][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:16.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:16.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:16.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:16.997][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:16.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:17.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.002][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:17.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:17.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.008][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:17.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:17.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:17.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:17.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.019][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:17.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:17.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.025][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:17.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:17.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:17.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:17.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:17.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:17.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.052][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.058][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:17.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:17.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.063][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:17.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:17.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.069][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:17.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:17.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:17.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:17.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:17.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:17.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:17.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:17.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.096][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.102][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.107][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:17.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:17.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.113][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:17.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:17.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.119][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:17.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:17.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.125][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.130][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.136][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.142][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:17.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:17.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.154][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:17.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:17.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.160][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:17.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:17.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.165][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-05 05:56:17.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.171][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.182][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.188][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-05 05:56:17.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:17.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.195][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.206][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.223][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:17.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:17.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.229][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:17.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:17.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:17.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:17.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.240][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:17.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:17.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:17.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:17.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:17.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:17.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:17.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:17.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:17.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:17.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:17.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:17.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:17.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:17.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.279][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-05 05:56:17.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-11-05 05:56:17.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-11-05 05:56:17.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-11-05 05:56:17.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-11-05 05:56:17.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-11-05 05:56:17.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-11-05 05:56:17.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-05 05:56:17.306][biodb::testThat]
biodb.INFO [2024-11-05 05:56:17.307][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-11-05 05:56:17.308][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:17.310][biodb::testThat]
biodb.TRACE[2024-11-05 05:56:17.314][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.315][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.318][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.320][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-11-05 05:56:17.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.369][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.375][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.385][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-11-05 05:56:17.386][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-11-05 05:56:17.388][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-05 05:56:17.389][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-05 05:56:17.392][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.394][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.396][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-05 05:56:17.398][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.399][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-05 05:56:17.401][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-05 05:56:17.402][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-05 05:56:17.404][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-05 05:56:17.405][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-05 05:56:17.407][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-05 05:56:17.408][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-05 05:56:17.410][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.416][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.422][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.433][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-05 05:56:17.435][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-05 05:56:17.436][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-11-05 05:56:17.451][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:17.453][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:17.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.455][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.457][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-11-05 05:56:17.473][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:17.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:17.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.478][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:17.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:17.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.484][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:17.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:17.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.493][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[2024-11-05 05:56:17.577][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-05 05:56:17.579][private$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[2024-11-05 05:56:17.580][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-11-05 05:56:17.601][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.603][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.605][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-05 05:56:17.607][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.609][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-05 05:56:17.631][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-05 05:56:17.633][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-05 05:56:17.634][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-05 05:56:17.636][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-05 05:56:17.637][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-05 05:56:17.638][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-05 05:56:17.641][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:17.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:17.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.647][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:17.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:17.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.652][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:17.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:17.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.658][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:17.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:17.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.664][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-05 05:56:17.665][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-05 05:56:17.666][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-11-05 05:56:17.682][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.684][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.686][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.688][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-11-05 05:56:17.712][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.717][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.723][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.732][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-11-05 05:56:17.734][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-11-05 05:56:17.736][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-11-05 05:56:17.737][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-11-05 05:56:17.740][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.742][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.744][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-05 05:56:17.746][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.747][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-05 05:56:17.749][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-05 05:56:17.751][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-05 05:56:17.752][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-05 05:56:17.754][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-05 05:56:17.755][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-05 05:56:17.756][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-05 05:56:17.759][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.765][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.771][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.777][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:17.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.783][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-05 05:56:17.784][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-05 05:56:17.786][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-11-05 05:56:17.806][biodb::testThat]
biodb.INFO [2024-11-05 05:56:17.808][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-11-05 05:56:17.809][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:17.811][biodb::testThat]
biodb.TRACE[2024-11-05 05:56:17.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.837][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.856][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-11-05 05:56:17.857][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-05 05:56:17.859][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-05 05:56:17.861][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.863][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.865][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-05 05:56:17.867][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:17.868][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-05 05:56:17.870][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-05 05:56:17.872][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-05 05:56:17.873][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-05 05:56:17.875][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-05 05:56:17.876][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-05 05:56:17.878][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-05 05:56:17.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.886][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:17.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:17.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:17.911][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-05 05:56:17.912][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-11-05 05:56:17.932][biodb::testThat]
biodb.INFO [2024-11-05 05:56:17.933][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-11-05 05:56:17.935][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:17.936][biodb::testThat]
biodb.TRACE[2024-11-05 05:56:17.964][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-05 05:56:17.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-05 05:56:17.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.970][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-05 05:56:17.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-05 05:56:17.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.975][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-05 05:56:17.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-05 05:56:17.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:17.980][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-05 05:56:17.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-05 05:56:17.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:17.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:18.044][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-05 05:56:18.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-05 05:56:18.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:18.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:18.050][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-05 05:56:18.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-05 05:56:18.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:18.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:18.055][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-05 05:56:18.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-05 05:56:18.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:18.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:18.060][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-05 05:56:18.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-05 05:56:18.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:18.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-05 05:56:18.080][biodb::testThat]
biodb.INFO [2024-11-05 05:56:18.081][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-11-05 05:56:18.082][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:18.084][biodb::testThat]
biodb.INFO [2024-11-05 05:56:18.094][biodb::testThat]
biodb.INFO [2024-11-05 05:56:18.095][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-11-05 05:56:18.097][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:18.098][biodb::testThat]
biodb.INFO [2024-11-05 05:56:18.108][biodb::testThat]
biodb.INFO [2024-11-05 05:56:18.110][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-11-05 05:56:18.111][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:18.112][biodb::testThat]
biodb.DEBUG[2024-11-05 05:56:18.117][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-11-05 05:56:28.878][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-11-05 05:56:30.561][biodb::testThat]
biodb.INFO [2024-11-05 05:56:30.562][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-11-05 05:56:30.564][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:30.565][biodb::testThat]
biodb.DEBUG[2024-11-05 05:56:32.682][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-11-05 05:56:33.321][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:33.323][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:33.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.326][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.328][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:33.329][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:33.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.332][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.334][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:33.335][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:33.337][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.338][ef$get] fields variable is a list.
biodb.INFO [2024-11-05 05:56:33.341][biodb::testThat]
biodb.INFO [2024-11-05 05:56:33.342][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-11-05 05:56:33.344][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:33.345][biodb::testThat]
biodb.DEBUG[2024-11-05 05:56:33.348][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-11-05 05:56:33.429][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-05 05:56:33.432][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:33.434][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-05 05:56:33.458][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-11-05 05:56:33.460][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-05 05:56:33.462][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-05 05:56:33.463][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-05 05:56:33.465][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:33.467][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-05 05:56:33.469][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-05 05:56:33.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:33.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:33.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:33.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:33.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:33.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.484][FUN] Functions in observer BiodbConfig: [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[2024-11-05 05:56:33.486][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:33.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:33.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.492][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:33.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:33.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:33.532][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-11-05 05:56:33.533][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-11-05 05:56:33.555][biodb::testThat]
biodb.INFO [2024-11-05 05:56:33.556][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-11-05 05:56:33.558][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:33.559][biodb::testThat]
biodb.DEBUG[2024-11-05 05:56:33.606][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-11-05 05:56:33.607][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-11-05 05:56:33.609][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-05 05:56:33.611][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:33.613][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-05 05:56:33.616][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-11-05 05:56:33.617][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-05 05:56:33.619][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-05 05:56:33.620][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-05 05:56:33.622][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:33.624][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-05 05:56:33.626][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-05 05:56:33.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:33.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:33.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:33.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:33.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:33.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-05 05:56:33.643][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:33.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:33.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.649][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:33.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:33.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:33.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:33.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:33.688][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-11-05 05:56:33.689][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-11-05 05:56:33.690][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-11-05 05:56:33.706][biodb::testThat]
biodb.INFO [2024-11-05 05:56:33.708][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-11-05 05:56:33.709][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:33.710][biodb::testThat]
biodb.INFO [2024-11-05 05:56:33.739][biodb::testThat]
biodb.INFO [2024-11-05 05:56:33.740][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-11-05 05:56:33.742][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:33.743][biodb::testThat]
biodb.DEBUG[2024-11-05 05:56:33.754][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:33.756][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:33.758][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-05 05:56:33.760][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:33.761][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-05 05:56:33.763][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-05 05:56:33.764][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-05 05:56:33.765][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-05 05:56:33.767][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-11-05 05:56:33.776][biodb::testThat]
biodb.INFO [2024-11-05 05:56:33.778][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-11-05 05:56:33.779][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:33.781][biodb::testThat]
biodb.DEBUG[2024-11-05 05:56:33.784][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:33.786][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:33.788][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-05 05:56:33.790][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:33.791][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-05 05:56:33.793][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-05 05:56:33.794][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-05 05:56:33.796][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-05 05:56:33.797][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-11-05 05:56:33.808][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:33.809][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:33.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.812][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.813][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:33.815][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:33.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.817][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:33.819][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:33.820][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:33.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:33.823][ef$get] fields variable is a list.
biodb.INFO [2024-11-05 05:56:33.824][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-05 05:56:33.826][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-05 05:56:33.837][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-05 05:56:33.838][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-05 05:56:33.839][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:33.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:33.842][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:33.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:33.844][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-05 05:56:33.850][biodb::testContext]
biodb.INFO [2024-11-05 05:56:33.851][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-05 05:56:33.852][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-11-05 05:56:33.854][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-05 05:56:33.855][biodb::testContext]
biodb.INFO [2024-11-05 05:56:33.860][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-05 05:56:33.862][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-11-05 05:56:33.867][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-05 05:56:33.868][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-05 05:56:33.870][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-05 05:56:33.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.875][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-05 05:56:33.876][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-05 05:56:33.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.881][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-05 05:56:33.883][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-05 05:56:33.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.888][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-05 05:56:33.889][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-05 05:56:33.891][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-05 05:56:33.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.896][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-05 05:56:33.897][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-05 05:56:33.906][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-05 05:56:33.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.912][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-05 05:56:33.913][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-05 05:56:33.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.918][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-05 05:56:33.919][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-05 05:56:33.921][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-05 05:56:33.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.926][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-05 05:56:33.927][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-05 05:56:33.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.932][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-05 05:56:33.934][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-05 05:56:33.935][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-05 05:56:33.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.940][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-05 05:56:33.942][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-05 05:56:33.943][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-05 05:56:33.944][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-05 05:56:33.946][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-05 05:56:33.947][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-05 05:56:33.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.952][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-05 05:56:33.954][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-05 05:56:33.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.959][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-05 05:56:33.960][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-05 05:56:33.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.965][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-05 05:56:33.967][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-05 05:56:33.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.972][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-05 05:56:33.973][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-05 05:56:33.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.978][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-05 05:56:33.980][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-05 05:56:33.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.985][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-05 05:56:33.986][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-05 05:56:33.991][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-05 05:56:33.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:33.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:33.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:33.996][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-05 05:56:33.997][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-05 05:56:33.999][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-05 05:56:34.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.004][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-05 05:56:34.007][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.008][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-05 05:56:34.009][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.011][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:34.012][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.013][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.015][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.016][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.018][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-05 05:56:34.019][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:34.020][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.022][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-05 05:56:34.023][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:34.024][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.026][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.027][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-05 05:56:34.027][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-05 05:56:34.027][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-05 05:56:34.027][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-05 05:56:34.027][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-05 05:56:34.028][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:34.030][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:34.031][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:34.032][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:34.034][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:34.035][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:34.036][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.038][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.039][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:34.040][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:34.041][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.043][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.044][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-05 05:56:34.047][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.048][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-05 05:56:34.050][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.058][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:34.060][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.061][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.063][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.064][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.065][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-05 05:56:34.067][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:34.068][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.070][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-05 05:56:34.071][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:34.072][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.074][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.075][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-05 05:56:34.075][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-05 05:56:34.075][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-05 05:56:34.075][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-05 05:56:34.075][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-05 05:56:34.077][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:34.078][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:34.079][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:34.080][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:34.082][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:34.083][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:34.084][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.086][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.087][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:34.088][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:34.090][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.091][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.093][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-05 05:56:34.095][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.097][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-05 05:56:34.098][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.099][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:34.101][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.102][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.104][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.105][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.106][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-05 05:56:34.108][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:34.109][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.110][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-05 05:56:34.112][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:34.113][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.115][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.116][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.117][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:34.119][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:34.120][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:34.121][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:34.123][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:34.124][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:34.125][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.127][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.128][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:34.129][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:34.131][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.132][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.134][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-05 05:56:34.136][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.137][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-05 05:56:34.139][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.140][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:34.142][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.143][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.144][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.146][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.147][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-05 05:56:34.149][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:34.150][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.151][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-05 05:56:34.153][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:34.154][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.155][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.157][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.158][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:34.160][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:34.161][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:34.162][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:34.164][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:34.165][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:34.166][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.167][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.169][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:34.170][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:34.171][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.173][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.175][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-05 05:56:34.176][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.228][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[2024-11-05 05:56:34.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.265][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[2024-11-05 05:56:34.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.297][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-05 05:56:34.299][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-05 05:56:34.301][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-05 05:56:34.303][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-05 05:56:34.305][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-05 05:56:34.307][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-05 05:56:34.308][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-05 05:56:34.310][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-05 05:56:34.312][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-05 05:56:34.314][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-05 05:56:34.316][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-05 05:56:34.318][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-05 05:56:34.320][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-05 05:56:34.322][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-05 05:56:34.324][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-05 05:56:34.326][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-05 05:56:34.328][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-05 05:56:34.330][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-05 05:56:34.332][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-05 05:56:34.334][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-05 05:56:34.336][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-05 05:56:34.338][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-05 05:56:34.340][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-05 05:56:34.342][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-05 05:56:34.344][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-05 05:56:34.346][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-05 05:56:34.348][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-05 05:56:34.350][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-05 05:56:34.359][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-05 05:56:34.361][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-05 05:56:34.364][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-05 05:56:34.366][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-05 05:56:34.368][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-05 05:56:34.370][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-05 05:56:34.372][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-05 05:56:34.373][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-05 05:56:34.375][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-05 05:56:34.377][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-05 05:56:34.379][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-05 05:56:34.381][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-05 05:56:34.383][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-05 05:56:34.385][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-05 05:56:34.387][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-05 05:56:34.389][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-05 05:56:34.391][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-05 05:56:34.393][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-05 05:56:34.395][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-05 05:56:34.397][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-05 05:56:34.399][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-05 05:56:34.401][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-05 05:56:34.403][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-05 05:56:34.405][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-05 05:56:34.407][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-05 05:56:34.409][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-05 05:56:34.411][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-05 05:56:34.413][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-05 05:56:34.415][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-05 05:56:34.417][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-05 05:56:34.419][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-05 05:56:34.421][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-05 05:56:34.423][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-05 05:56:34.425][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-05 05:56:34.427][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-05 05:56:34.429][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-05 05:56:34.431][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-05 05:56:34.432][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-05 05:56:34.434][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-05 05:56:34.436][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-05 05:56:34.438][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-05 05:56:34.440][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-05 05:56:34.442][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-05 05:56:34.444][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-05 05:56:34.446][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-05 05:56:34.448][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-05 05:56:34.450][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-05 05:56:34.452][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-05 05:56:34.454][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-05 05:56:34.456][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-05 05:56:34.458][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-05 05:56:34.460][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-05 05:56:34.462][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-05 05:56:34.464][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-05 05:56:34.466][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-05 05:56:34.468][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-05 05:56:34.470][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-05 05:56:34.471][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-05 05:56:34.473][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.475][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.560][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[2024-11-05 05:56:34.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.568][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[2024-11-05 05:56:34.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.584][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[2024-11-05 05:56:34.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:34.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:34.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.625][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[2024-11-05 05:56:34.627][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-05 05:56:34.629][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:34.632][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.633][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.634][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.636][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:34.637][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.645][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-05 05:56:34.647][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.648][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.650][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-05 05:56:34.651][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:34.652][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.654][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-05 05:56:34.655][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-05 05:56:34.657][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-05 05:56:34.658][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:34.659][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-05 05:56:34.659][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-05 05:56:34.659][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-05 05:56:34.661][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-05 05:56:34.662][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:34.663][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:34.665][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:34.666][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:34.667][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:34.668][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:34.670][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-05 05:56:34.670][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-05 05:56:34.671][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:34.672][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:34.674][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:34.675][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:34.677][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-05 05:56:34.679][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-05 05:56:34.681][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-05 05:56:34.683][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-05 05:56:34.685][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-05 05:56:34.690][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:34.691][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-05 05:56:34.693][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:34.694][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-05 05:56:34.696][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:34.697][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:34.699][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-05 05:56:34.700][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-05 05:56:34.702][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-05 05:56:34.702][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-05 05:56:34.703][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:34.704][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:34.706][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-05 05:56:34.707][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-05 05:56:34.708][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:34.710][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-05 05:56:34.712][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:34.713][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:34.715][private$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[2024-11-05 05:56:34.716][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:34.718][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-05 05:56:34.720][biodb::testThat]
biodb.INFO [2024-11-05 05:56:34.721][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-11-05 05:56:34.722][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:34.723][biodb::testThat]
biodb.DEBUG[2024-11-05 05:56:34.728][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:34.730][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:34.732][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-05 05:56:34.734][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:34.735][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-05 05:56:34.737][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-05 05:56:34.738][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-05 05:56:34.739][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-05 05:56:34.741][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-05 05:56:34.744][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-11-05 05:56:34.751][biodb::testThat]
biodb.INFO [2024-11-05 05:56:34.753][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-11-05 05:56:34.754][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:34.755][biodb::testThat]
biodb.DEBUG[2024-11-05 05:56:34.758][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-11-05 05:56:34.759][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-05 05:56:34.761][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:34.763][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-05 05:56:34.766][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-11-05 05:56:34.768][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-05 05:56:34.770][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-05 05:56:34.771][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-05 05:56:34.773][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-05 05:56:34.774][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-05 05:56:34.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:34.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:34.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:34.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:34.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:34.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:34.797][FUN] Functions in observer BiodbConfig: [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[2024-11-05 05:56:34.801][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:34.802][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:34.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.805][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:34.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:34.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.813][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:34.814][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:34.815][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.817][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.818][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:34.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:34.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.824][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:34.825][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:34.827][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.828][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.830][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:34.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:34.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.836][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:34.837][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:34.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.840][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.841][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:34.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:34.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.847][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:34.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:34.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.851][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:34.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:34.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.858][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:34.860][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:34.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.862][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:34.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:34.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.870][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:34.871][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:34.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.874][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.876][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:34.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:34.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.881][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:34.883][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:34.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.885][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.887][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:34.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:34.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.892][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:34.894][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:34.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.897][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.898][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:34.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:34.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.904][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:34.905][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:34.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.908][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.910][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:34.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:34.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.915][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:34.917][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:34.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.919][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.921][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:34.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:34.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.927][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:34.928][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:34.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.931][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:34.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:34.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.946][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:34.947][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:34.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.950][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:34.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:34.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.957][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:34.959][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:34.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.961][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:34.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:34.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.969][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:34.970][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:34.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.973][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.974][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:34.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:34.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.980][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:34.981][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:34.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.984][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.985][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:34.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:34.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.991][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:34.992][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:34.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:34.995][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:34.997][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:34.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:35.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.002][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-05 05:56:35.004][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:35.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.006][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.008][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-05 05:56:35.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:35.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.085][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:35.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:35.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.090][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:35.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:35.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.096][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:35.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:35.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.101][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:35.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:35.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.106][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:35.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:35.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.111][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:35.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:35.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:35.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:35.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:35.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:35.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:35.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:35.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:35.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:35.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:35.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:35.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:35.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:35.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.148][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:35.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:35.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.153][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:35.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:35.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.158][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:35.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:35.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.164][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:35.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:35.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:35.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:35.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.174][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:35.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:35.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.179][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:35.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:35.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.184][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:35.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:35.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.190][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:35.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:35.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.195][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:35.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:35.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.200][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:35.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:35.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.205][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:35.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:35.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.218][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:35.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:35.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.223][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:35.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:35.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.229][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:35.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:35.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:35.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:35.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:35.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:35.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:35.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:35.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.265][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:35.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:35.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.270][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:35.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:35.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.275][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:35.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:35.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:35.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:35.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:35.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:35.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:35.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:35.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:35.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:35.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:35.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:35.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.307][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:35.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:35.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.312][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:35.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:35.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.317][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:35.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:35.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.322][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:35.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:35.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.328][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:35.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:35.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.333][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:35.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:35.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.338][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:35.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:35.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.344][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:35.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:35.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.349][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:35.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:35.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.375][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:35.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:35.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.381][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-05 05:56:35.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.387][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.404][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-05 05:56:35.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:35.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.412][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:35.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:35.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.418][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:35.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:35.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:35.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:35.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:35.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:35.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:35.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:35.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.441][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:35.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:35.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.447][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:35.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:35.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.458][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:35.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:35.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:35.499][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-11-05 05:56:35.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:35.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:35.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:35.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:35.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-05 05:56:35.534][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-05 05:56:35.536][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-05 05:56:35.537][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-05 05:56:35.539][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-05 05:56:35.540][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:35.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:35.542][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.545][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-05 05:56:35.551][biodb::testContext]
biodb.INFO [2024-11-05 05:56:35.552][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-05 05:56:35.553][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-11-05 05:56:35.555][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-05 05:56:35.556][biodb::testContext]
biodb.INFO [2024-11-05 05:56:35.561][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-05 05:56:35.563][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-11-05 05:56:35.568][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-05 05:56:35.570][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-05 05:56:35.571][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-05 05:56:35.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.575][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[2024-11-05 05:56:35.576][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-05 05:56:35.578][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-05 05:56:35.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.583][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-05 05:56:35.584][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-05 05:56:35.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.590][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-05 05:56:35.591][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-05 05:56:35.592][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-05 05:56:35.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.598][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-05 05:56:35.600][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-05 05:56:35.601][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-05 05:56:35.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.605][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[2024-11-05 05:56:35.607][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-05 05:56:35.608][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-05 05:56:35.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.614][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-05 05:56:35.615][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-05 05:56:35.617][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-05 05:56:35.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.622][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-05 05:56:35.624][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-05 05:56:35.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.629][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-05 05:56:35.631][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-05 05:56:35.632][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-05 05:56:35.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.636][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[2024-11-05 05:56:35.638][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-05 05:56:35.639][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-05 05:56:35.641][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-05 05:56:35.642][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-05 05:56:35.643][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-05 05:56:35.645][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-05 05:56:35.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.650][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-05 05:56:35.652][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-05 05:56:35.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.656][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[2024-11-05 05:56:35.657][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-05 05:56:35.659][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-05 05:56:35.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.664][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-05 05:56:35.665][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-05 05:56:35.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.671][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-05 05:56:35.672][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-05 05:56:35.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.686][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-05 05:56:35.688][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-05 05:56:35.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.693][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-05 05:56:35.695][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-05 05:56:35.699][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-05 05:56:35.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.705][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-05 05:56:35.706][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-05 05:56:35.708][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-05 05:56:35.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.714][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-05 05:56:35.716][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.718][self$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[2024-11-05 05:56:35.719][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.721][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:35.722][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.724][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.725][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.727][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.728][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-05 05:56:35.730][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:35.731][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.733][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-05 05:56:35.734][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:35.736][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.737][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.739][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-05 05:56:35.739][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-05 05:56:35.739][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-05 05:56:35.739][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-05 05:56:35.739][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-05 05:56:35.740][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:35.741][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:35.743][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:35.744][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:35.746][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:35.747][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:35.749][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.750][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.752][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:35.753][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:35.755][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.756][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.758][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-05 05:56:35.760][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.762][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-05 05:56:35.763][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.765][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:35.766][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.768][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.769][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.771][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.772][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-05 05:56:35.773][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:35.775][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.776][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-05 05:56:35.778][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:35.779][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.781][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.782][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-05 05:56:35.782][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-05 05:56:35.782][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-05 05:56:35.782][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-05 05:56:35.782][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-05 05:56:35.783][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:35.785][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:35.786][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:35.788][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:35.789][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:35.790][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:35.792][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.793][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.795][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:35.796][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:35.797][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.799][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.801][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-05 05:56:35.803][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.805][self$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[2024-11-05 05:56:35.806][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.808][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:35.809][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.811][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.812][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.813][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.815][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-05 05:56:35.816][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:35.818][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.819][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-05 05:56:35.821][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:35.822][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.823][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.825][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.826][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:35.828][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:35.836][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:35.838][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:35.839][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:35.841][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:35.842][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.843][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.845][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:35.846][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:35.847][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.848][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.850][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-05 05:56:35.852][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.854][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-05 05:56:35.855][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.856][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:35.858][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.859][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.860][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.862][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.863][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-05 05:56:35.864][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:35.866][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.867][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-05 05:56:35.868][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:35.870][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.871][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:35.872][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.874][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-05 05:56:35.875][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:35.876][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:35.877][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:35.879][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:35.880][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:35.881][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:35.883][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.884][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:35.885][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:35.886][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:35.888][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:35.890][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-05 05:56:35.891][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.892][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[2024-11-05 05:56:35.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.898][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[2024-11-05 05:56:35.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.904][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[2024-11-05 05:56:35.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.910][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[2024-11-05 05:56:35.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:35.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:35.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:35.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:35.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:35.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.004][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-05 05:56:36.006][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-05 05:56:36.008][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-05 05:56:36.010][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-05 05:56:36.012][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-05 05:56:36.013][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-05 05:56:36.015][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-05 05:56:36.017][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-05 05:56:36.019][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-05 05:56:36.021][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-05 05:56:36.023][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-05 05:56:36.025][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-05 05:56:36.027][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-05 05:56:36.029][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-05 05:56:36.031][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-05 05:56:36.033][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-05 05:56:36.035][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-05 05:56:36.037][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-05 05:56:36.039][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-05 05:56:36.041][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-05 05:56:36.043][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-05 05:56:36.045][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-05 05:56:36.047][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-05 05:56:36.049][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-05 05:56:36.052][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-05 05:56:36.054][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-05 05:56:36.056][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-05 05:56:36.058][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-05 05:56:36.060][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-05 05:56:36.062][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-05 05:56:36.064][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-05 05:56:36.066][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-05 05:56:36.068][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-05 05:56:36.070][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-05 05:56:36.073][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-05 05:56:36.075][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-05 05:56:36.077][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-05 05:56:36.079][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-05 05:56:36.081][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-05 05:56:36.083][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-05 05:56:36.085][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-05 05:56:36.087][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-05 05:56:36.089][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-05 05:56:36.091][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-05 05:56:36.093][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-05 05:56:36.095][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-05 05:56:36.097][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-05 05:56:36.099][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-05 05:56:36.101][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-05 05:56:36.103][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-05 05:56:36.105][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-05 05:56:36.108][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-05 05:56:36.110][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-05 05:56:36.112][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-05 05:56:36.122][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-05 05:56:36.124][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-05 05:56:36.126][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-05 05:56:36.128][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-05 05:56:36.130][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-05 05:56:36.132][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-05 05:56:36.134][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-05 05:56:36.137][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-05 05:56:36.139][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-05 05:56:36.141][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-05 05:56:36.143][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-05 05:56:36.145][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-05 05:56:36.147][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-05 05:56:36.149][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-05 05:56:36.151][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-05 05:56:36.153][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-05 05:56:36.155][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-05 05:56:36.158][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-05 05:56:36.160][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-05 05:56:36.162][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-05 05:56:36.164][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-05 05:56:36.166][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-05 05:56:36.168][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-05 05:56:36.170][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-05 05:56:36.172][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-05 05:56:36.174][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-05 05:56:36.176][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-05 05:56:36.178][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-05 05:56:36.180][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-05 05:56:36.182][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-05 05:56:36.184][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-05 05:56:36.186][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-05 05:56:36.187][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.190][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.244][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[2024-11-05 05:56:36.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.288][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[2024-11-05 05:56:36.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-05 05:56:36.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:36.350][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-05 05:56:36.352][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:36.354][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:36.356][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-05 05:56:36.357][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:36.359][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-05 05:56:36.360][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:36.361][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-05 05:56:36.363][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:36.364][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-05 05:56:36.365][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-05 05:56:36.367][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-05 05:56:36.368][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:36.369][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-05 05:56:36.371][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-05 05:56:36.372][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-05 05:56:36.374][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-05 05:56:36.375][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-05 05:56:36.375][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-05 05:56:36.375][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-05 05:56:36.377][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-05 05:56:36.378][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:36.379][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:36.381][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-05 05:56:36.382][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-05 05:56:36.383][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-05 05:56:36.385][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-05 05:56:36.386][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-05 05:56:36.386][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-05 05:56:36.387][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:36.389][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:36.390][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-05 05:56:36.391][self$setPropertyValue]
biodb.DEBUG[2024-11-05 05:56:36.393][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-05 05:56:36.395][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-05 05:56:36.397][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-05 05:56:36.408][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-05 05:56:36.411][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-05 05:56:36.416][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:36.418][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-05 05:56:36.420][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:36.422][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-05 05:56:36.424][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:36.425][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:36.428][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-05 05:56:36.429][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-05 05:56:36.431][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-05 05:56:36.431][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-05 05:56:36.432][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-05 05:56:36.434][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-05 05:56:36.435][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-05 05:56:36.436][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-05 05:56:36.438][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-05 05:56:36.440][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-05 05:56:36.442][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:36.443][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:36.445][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-05 05:56:36.447][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-05 05:56:36.449][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-05 05:56:36.451][biodb::testThat]
biodb.INFO [2024-11-05 05:56:36.452][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-11-05 05:56:36.454][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-05 05:56:36.455][biodb::testThat]
biodb.DEBUG[2024-11-05 05:56:36.458][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-05 05:56:36.459][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-11-05 05:56:36.461][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-11-05 05:56:36.465][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:36.467][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:36.469][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-05 05:56:36.471][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:36.472][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-05 05:56:36.474][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-05 05:56:36.476][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-05 05:56:36.477][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-05 05:56:36.479][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-05 05:56:36.480][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-05 05:56:36.482][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-11-05 05:56:36.484][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-11-05 05:56:36.486][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-05 05:56:36.488][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:36.490][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-05 05:56:36.493][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-11-05 05:56:36.495][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-05 05:56:36.497][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-11-05 05:56:36.499][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-05 05:56:36.501][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-05 05:56:36.503][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-05 05:56:36.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:36.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:36.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:36.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:36.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:36.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:36.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-05 05:56:36.524][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:36.525][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:36.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.528][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:36.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:36.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.536][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:36.537][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:36.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.540][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.542][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:36.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:36.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.548][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:36.549][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:36.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.552][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.554][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:36.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:36.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.567][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:36.569][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:36.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.572][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.574][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:36.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:36.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.580][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:36.582][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:36.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.584][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:36.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:36.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.592][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:36.594][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:36.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.596][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:36.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:36.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.604][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:36.606][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:36.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.609][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.611][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:36.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:36.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.616][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:36.618][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:36.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.621][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.623][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:36.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:36.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.629][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:36.630][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:36.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.633][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.635][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:36.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:36.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.641][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:36.642][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:36.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.645][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.647][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:36.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:36.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.653][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:36.654][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:36.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.657][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.659][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:36.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:36.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.664][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:36.666][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:36.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.669][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.671][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:36.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:36.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.676][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:36.678][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:36.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.681][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:36.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:36.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.688][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:36.690][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:36.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.692][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:36.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:36.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.700][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:36.702][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:36.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.704][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:36.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:36.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.726][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:36.728][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:36.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.731][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.733][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:36.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:36.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.739][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:36.740][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:36.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.743][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.745][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:36.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:36.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.751][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-05 05:56:36.752][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:36.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.755][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.757][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-05 05:56:36.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:36.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:36.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:36.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:36.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:36.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:36.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:36.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.781][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:36.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:36.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.786][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:36.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:36.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.792][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:36.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:36.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.798][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:36.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:36.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.804][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:36.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:36.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.809][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:36.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:36.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:36.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:36.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:36.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:36.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:36.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:36.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:36.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:36.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:36.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:36.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:36.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:36.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.851][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:36.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:36.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.857][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:36.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:36.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.863][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:36.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:36.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.869][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:36.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:36.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.883][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:36.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:36.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.890][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:36.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:36.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.896][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:36.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:36.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.902][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:36.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:36.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.907][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:36.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:36.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.913][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:36.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:36.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.919][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:36.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:36.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.925][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:36.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:36.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.931][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:36.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:36.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.937][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:36.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:36.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.942][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:36.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:36.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:36.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:36.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.954][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:36.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:36.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.960][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:36.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:36.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:36.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:36.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:36.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:36.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:36.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:36.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.984][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:36.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:36.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.989][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:36.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:36.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:36.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:36.995][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:36.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:36.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.019][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.030][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.044][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.050][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.055][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.061][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.066][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.072][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.077][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:37.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:37.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.083][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:37.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:37.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.088][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:37.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:37.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.094][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-05 05:56:37.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.115][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-05 05:56:37.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.128][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.133][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.144][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.150][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:37.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:37.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.155][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:37.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:37.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.166][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:37.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:37.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:37.215][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-05 05:56:37.217][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:37.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:37.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.223][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:37.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:37.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.229][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:37.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:37.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.235][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:37.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:37.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:37.241][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-05 05:56:37.242][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-05 05:56:37.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:37.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:37.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:37.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:37.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:37.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:37.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:37.258][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-11-05 05:56:37.259][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-05 05:56:37.262][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:37.264][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-05 05:56:37.288][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-11-05 05:56:37.290][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-05 05:56:37.292][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-05 05:56:37.294][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-05 05:56:37.296][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-05 05:56:37.297][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-05 05:56:37.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:37.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:37.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:37.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:37.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:37.311][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:37.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-05 05:56:37.316][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.318][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.321][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.328][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.330][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.341][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.343][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.350][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:37.351][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:37.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.354][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.356][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:37.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:37.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.362][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:37.363][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:37.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.366][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.368][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:37.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:37.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.373][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:37.375][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:37.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.378][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:37.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:37.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.385][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:37.387][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:37.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.390][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:37.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:37.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.397][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:37.399][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:37.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.402][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.404][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:37.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:37.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.409][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.411][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.414][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.416][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.421][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:37.423][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:37.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.426][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.428][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:37.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:37.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.433][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:37.435][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:37.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.438][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.440][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:37.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:37.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.445][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:37.447][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:37.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.450][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.451][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:37.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:37.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.457][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:37.459][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:37.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.461][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:37.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:37.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.469][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.471][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.473][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.481][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.483][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.485][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.501][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.503][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.505][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.506][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.508][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.514][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:37.515][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:37.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.518][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.519][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:37.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:37.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.525][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:37.527][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:37.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.530][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.531][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:37.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:37.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.537][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-05 05:56:37.539][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:37.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.542][ef$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.544][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-05 05:56:37.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:37.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:37.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:37.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.616][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:37.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:37.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.621][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:37.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:37.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.627][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-05 05:56:37.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-05 05:56:37.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.641][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:37.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:37.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.647][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:37.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:37.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.653][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-05 05:56:37.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-05 05:56:37.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:37.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:37.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:37.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:37.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-05 05:56:37.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-05 05:56:37.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:37.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:37.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:37.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:37.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:37.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-05 05:56:37.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.693][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:37.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:37.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.698][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:37.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:37.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.704][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:37.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-05 05:56:37.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.710][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:37.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:37.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.716][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:37.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:37.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.721][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:37.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-05 05:56:37.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.727][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:37.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:37.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.733][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:37.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:37.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.739][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:37.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-05 05:56:37.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.745][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:37.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:37.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.751][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:37.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:37.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.757][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:37.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:37.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.762][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:37.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:37.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.768][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:37.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:37.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.774][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-05 05:56:37.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-05 05:56:37.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:37.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:37.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.794][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:37.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:37.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-05 05:56:37.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-05 05:56:37.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.806][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.824][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:37.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:37.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.830][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:37.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:37.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.836][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:37.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-05 05:56:37.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-05 05:56:37.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.859][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.865][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.871][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.877][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.883][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.889][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-05 05:56:37.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.895][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.901][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.907][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-05 05:56:37.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.913][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:37.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:37.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.919][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:37.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:37.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.924][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-05 05:56:37.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-05 05:56:37.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.930][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-05 05:56:37.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.963][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-05 05:56:37.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-05 05:56:37.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.976][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.981][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.987][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:37.993][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-05 05:56:37.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-05 05:56:37.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:37.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.000][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:38.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:38.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.010][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:38.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:38.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:38.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:38.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.023][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:38.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-05 05:56:38.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:38.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:38.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:38.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:38.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:38.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:38.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:38.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:38.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:38.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:38.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-05 05:56:38.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-05 05:56:38.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:38.067][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-11-05 05:56:38.069][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.076][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.082][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.089][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:38.096][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-05 05:56:38.097][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-11-05 05:56:38.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:38.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:38.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:38.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:38.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:38.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:38.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:38.141][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-05 05:56:38.142][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-11-05 05:56:38.144][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-11-05 05:56:38.147][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:38.149][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:38.152][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-05 05:56:38.154][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:38.156][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-05 05:56:38.158][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-05 05:56:38.159][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-05 05:56:38.161][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-05 05:56:38.163][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-05 05:56:38.164][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-05 05:56:38.166][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-05 05:56:38.169][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.175][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.182][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.188][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.194][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.200][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.206][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:38.212][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-05 05:56:38.213][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-05 05:56:38.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:38.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:38.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:38.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:38.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:38.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:38.227][FUN] Functions in observer BiodbConfig: [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[2024-11-05 05:56:38.229][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.234][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.240][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.246][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.251][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.257][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.263][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:38.268][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-11-05 05:56:38.270][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-05 05:56:38.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:38.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:38.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:38.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:38.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:38.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:38.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-05 05:56:38.300][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-05 05:56:38.301][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-11-05 05:56:38.303][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-11-05 05:56:38.305][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:38.307][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:38.309][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-05 05:56:38.312][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-05 05:56:38.313][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-05 05:56:38.315][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-05 05:56:38.316][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-05 05:56:38.318][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-05 05:56:38.319][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-05 05:56:38.321][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-05 05:56:38.322][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-05 05:56:38.325][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.331][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.336][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.342][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.348][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.354][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.360][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:38.365][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-11-05 05:56:38.367][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-11-05 05:56:38.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:38.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:38.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:38.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:38.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:38.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:38.381][FUN] Functions in observer BiodbConfig: [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[2024-11-05 05:56:38.383][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.389][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.394][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.400][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.406][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.411][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-05 05:56:38.417][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-05 05:56:38.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-05 05:56:38.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-05 05:56:38.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-05 05:56:38.422][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-05 05:56:38.424][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-05 05:56:38.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-05 05:56:38.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:38.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:38.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:38.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:38.444][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:38.446][FUN] Functions in observer BiodbConfig: [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 [2024-11-05 05:56:38.456][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-05 05:56:38.458][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-05 05:56:38.459][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-05 05:56:38.460][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-05 05:56:38.461][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-05 05:56:38.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-05 05:56:38.464][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-05 05:56:38.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-05 05:56:38.466][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-05 05:56:38.468][FUN] Functions in observer 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
12.615 0.328 27.841