Pierrick Roger
| Snapshot Date: 2024-12-23 13:40 -0500 (Mon, 23 Dec 2024) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: devel |
| git_last_commit: d2b9830 |
| git_last_commit_date: 2024-10-29 11:06:39 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2024-12-24 11:46 -0500 (Tue, 24 Dec 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4373 |
| 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 201/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.13.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the biodbHmdb package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: biodbHmdb |
| Version: 1.13.0 |
| 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_1.13.0.tar.gz |
| StartedAt: 2024-12-24 04:28:16 -0000 (Tue, 24 Dec 2024) |
| EndedAt: 2024-12-24 04:56:17 -0000 (Tue, 24 Dec 2024) |
| EllapsedTime: 1681.2 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_1.13.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck’
* using R Under development (unstable) (2024-11-24 r87369)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.13.0’
* 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-3.21-bioc/meat/biodbHmdb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
* checking installed package size ... INFO
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, 2 NOTEs
See
‘/home/biocbuild/bbs-3.21-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-4.5.0-devel_2024-11-24/site-library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -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() :
| ^~~~~~~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -c FileEntryMaker.cpp -o FileEntryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -c TagDetector.cpp -o TagDetector.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -c XmlSplitter.cpp -o XmlSplitter.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -c extractXmlEntries.cpp -o extractXmlEntries.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -c test-100-TagDetector.cpp -o test-100-TagDetector.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -DR_NO_REMAP -c test-runner.cpp -o test-runner.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/R/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/lib -lR
installing to /home/biocbuild/R/R-4.5.0-devel_2024-11-24/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 Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences"
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")
Warning: program compiled against libxml 212 using older 211
biodb.INFO [2024-12-24 04:55:49.783][biodb::testContext]
biodb.INFO [2024-12-24 04:55:49.785][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-24 04:55:49.787][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-12-24 04:55:49.788][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-24 04:55:49.790][biodb::testContext]
biodb.INFO [2024-12-24 04:55:49.792][biodb::testThat]
biodb.INFO [2024-12-24 04:55:49.794][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-12-24 04:55:49.795][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:55:49.797][biodb::testThat]
biodb.INFO [2024-12-24 04:55:49.935][biodb::testContext]
biodb.INFO [2024-12-24 04:55:49.936][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-24 04:55:49.937][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-12-24 04:55:49.939][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-24 04:55:49.940][biodb::testContext]
biodb.INFO [2024-12-24 04:55:49.951][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2024-12-24 04:55:49.954][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-12-24 04:55:49.964][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-24 04:55:49.966][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-12-24 04:55:49.968][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-12-24 04:55:49.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:49.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:49.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:49.973][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-12-24 04:55:50.011][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-12-24 04:55:50.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.016][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-12-24 04:55:50.018][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-12-24 04:55:50.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.023][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-12-24 04:55:50.024][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-12-24 04:55:50.026][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-12-24 04:55:50.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.031][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-12-24 04:55:50.032][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-12-24 04:55:50.033][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-12-24 04:55:50.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.039][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-12-24 04:55:50.040][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-12-24 04:55:50.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.045][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-12-24 04:55:50.047][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-12-24 04:55:50.048][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-12-24 04:55:50.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.053][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-12-24 04:55:50.055][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-12-24 04:55:50.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.060][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-12-24 04:55:50.061][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-12-24 04:55:50.062][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-12-24 04:55:50.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.068][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-12-24 04:55:50.069][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-12-24 04:55:50.070][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-12-24 04:55:50.072][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-12-24 04:55:50.073][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-12-24 04:55:50.075][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-12-24 04:55:50.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.080][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-12-24 04:55:50.081][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-12-24 04:55:50.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.086][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-12-24 04:55:50.088][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-12-24 04:55:50.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.093][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-12-24 04:55:50.095][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-12-24 04:55:50.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.100][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-12-24 04:55:50.102][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-12-24 04:55:50.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.107][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-12-24 04:55:50.109][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-12-24 04:55:50.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.114][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-12-24 04:55:50.115][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-12-24 04:55:50.124][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-12-24 04:55:50.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.129][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-12-24 04:55:50.131][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-12-24 04:55:50.132][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-12-24 04:55:50.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.140][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-12-24 04:55:50.189][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.213][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-12-24 04:55:50.214][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.216][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:55:50.217][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.219][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.220][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.222][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.223][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-24 04:55:50.225][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:55:50.226][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.228][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-12-24 04:55:50.229][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:55:50.230][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.232][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.233][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-24 04:55:50.233][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-24 04:55:50.233][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-24 04:55:50.233][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-24 04:55:50.233][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-24 04:55:50.235][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:55:50.236][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:55:50.238][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:55:50.239][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:55:50.240][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:55:50.242][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:55:50.243][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.245][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.246][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:55:50.256][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:55:50.257][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.259][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.260][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-12-24 04:55:50.263][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.265][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-12-24 04:55:50.266][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.267][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:55:50.269][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.270][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.272][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.273][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.275][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-24 04:55:50.276][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:55:50.278][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.279][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-12-24 04:55:50.281][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:55:50.282][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.284][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.285][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-24 04:55:50.285][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-24 04:55:50.285][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-24 04:55:50.285][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-24 04:55:50.285][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-24 04:55:50.287][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:55:50.288][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:55:50.290][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:55:50.291][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:55:50.293][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:55:50.294][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:55:50.296][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.297][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.298][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:55:50.300][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:55:50.301][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.303][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.304][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-12-24 04:55:50.307][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.309][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-12-24 04:55:50.310][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.312][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:55:50.313][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.315][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.316][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.318][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.319][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-24 04:55:50.321][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:55:50.322][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.324][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-12-24 04:55:50.325][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:55:50.327][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.328][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.329][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.331][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:55:50.332][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:55:50.334][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:55:50.335][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:55:50.336][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:55:50.338][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:55:50.339][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.341][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.342][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:55:50.343][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:55:50.345][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.346][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.348][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-12-24 04:55:50.350][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.352][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-12-24 04:55:50.353][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.355][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:55:50.356][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.358][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.359][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.361][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.362][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-24 04:55:50.363][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:55:50.365][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.366][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-12-24 04:55:50.368][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:55:50.369][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.371][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.372][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.374][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:55:50.375][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:55:50.376][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:55:50.378][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:55:50.379][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:55:50.380][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:55:50.382][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.383][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.385][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:55:50.386][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:55:50.387][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.389][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.394][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-24 04:55:50.395][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.476][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[2024-12-24 04:55:50.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.510][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-12-24 04:55:50.524][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-12-24 04:55:50.526][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-12-24 04:55:50.528][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-12-24 04:55:50.531][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-24 04:55:50.533][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-24 04:55:50.535][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-12-24 04:55:50.537][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-12-24 04:55:50.539][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-12-24 04:55:50.541][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-24 04:55:50.543][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-24 04:55:50.545][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-12-24 04:55:50.547][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-12-24 04:55:50.549][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-12-24 04:55:50.551][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-12-24 04:55:50.553][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-24 04:55:50.555][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-12-24 04:55:50.557][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-12-24 04:55:50.559][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-24 04:55:50.561][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-12-24 04:55:50.563][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-12-24 04:55:50.566][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-12-24 04:55:50.568][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-12-24 04:55:50.570][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-12-24 04:55:50.572][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-12-24 04:55:50.574][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-12-24 04:55:50.576][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-12-24 04:55:50.579][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-12-24 04:55:50.581][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-12-24 04:55:50.583][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-12-24 04:55:50.585][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-12-24 04:55:50.587][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-12-24 04:55:50.589][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-12-24 04:55:50.591][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-12-24 04:55:50.594][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-12-24 04:55:50.596][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-12-24 04:55:50.598][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-12-24 04:55:50.600][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-12-24 04:55:50.602][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-12-24 04:55:50.604][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-12-24 04:55:50.606][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-12-24 04:55:50.608][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-12-24 04:55:50.611][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-12-24 04:55:50.613][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-12-24 04:55:50.615][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-12-24 04:55:50.617][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-12-24 04:55:50.619][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-12-24 04:55:50.621][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-12-24 04:55:50.623][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-12-24 04:55:50.626][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-12-24 04:55:50.628][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-12-24 04:55:50.630][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-12-24 04:55:50.632][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-12-24 04:55:50.634][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-12-24 04:55:50.637][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-12-24 04:55:50.639][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-12-24 04:55:50.641][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-12-24 04:55:50.644][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-12-24 04:55:50.646][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-12-24 04:55:50.648][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-12-24 04:55:50.650][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-12-24 04:55:50.653][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-12-24 04:55:50.655][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-12-24 04:55:50.657][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-12-24 04:55:50.659][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-12-24 04:55:50.661][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-12-24 04:55:50.664][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-24 04:55:50.666][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-24 04:55:50.668][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-12-24 04:55:50.671][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-12-24 04:55:50.673][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-12-24 04:55:50.675][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-12-24 04:55:50.678][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-12-24 04:55:50.680][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-12-24 04:55:50.682][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-12-24 04:55:50.685][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-12-24 04:55:50.687][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-12-24 04:55:50.690][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-12-24 04:55:50.692][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-12-24 04:55:50.694][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-12-24 04:55:50.696][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-12-24 04:55:50.698][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-12-24 04:55:50.700][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-12-24 04:55:50.709][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-12-24 04:55:50.711][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2024-12-24 04:55:50.716][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-24 04:55:50.717][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.720][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.855][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[2024-12-24 04:55:50.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.873][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[2024-12-24 04:55:50.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.918][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[2024-12-24 04:55:50.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:55:50.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:50.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:50.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:50.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:50.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:50.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:55:50.929][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-12-24 04:55:50.944][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:55:50.947][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.948][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.950][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.951][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:55:50.953][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.954][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-12-24 04:55:50.956][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.957][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.958][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-12-24 04:55:50.960][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:55:50.961][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.963][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-12-24 04:55:50.964][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-12-24 04:55:50.966][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-12-24 04:55:50.967][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-12-24 04:55:50.969][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-24 04:55:50.969][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-12-24 04:55:50.969][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-12-24 04:55:50.970][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-12-24 04:55:50.972][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:55:50.973][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:55:50.975][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:55:50.976][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:55:50.977][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:55:50.979][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:55:50.980][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-12-24 04:55:50.980][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-12-24 04:55:50.982][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:55:50.983][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:55:50.984][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-12-24 04:55:50.986][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:55:50.995][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-12-24 04:55:50.997][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-24 04:55:50.999][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-24 04:55:51.002][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-24 04:55:51.004][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-24 04:55:51.036][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:55:51.037][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-12-24 04:55:51.043][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:55:51.049][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-12-24 04:55:51.055][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:55:51.056][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:55:51.059][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-12-24 04:55:51.060][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-12-24 04:55:51.062][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-12-24 04:55:51.062][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-12-24 04:55:51.063][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:55:51.065][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:55:51.066][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-12-24 04:55:51.067][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-12-24 04:55:51.069][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:55:51.105][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-12-24 04:55:51.106][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:55:51.108][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:55:51.110][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-12-24 04:55:51.111][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:55:51.113][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-12-24 04:55:51.123][biodb::testThat]
biodb.INFO [2024-12-24 04:55:51.124][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-12-24 04:55:51.126][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:55:51.127][biodb::testThat]
biodb.TRACE[2024-12-24 04:55:51.133][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-12-24 04:55:51.136][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-12-24 04:55:51.140][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-12-24 04:55:51.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:55:51.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:51.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:51.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:51.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:51.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:51.166][FUN] Functions in observer BiodbConfig: [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[2024-12-24 04:55:51.181][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:51.182][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:51.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.185][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:51.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:51.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.211][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:51.212][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:51.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.215][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.254][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:51.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:51.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.260][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:51.261][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:51.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.264][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.266][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:51.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:51.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.271][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:51.273][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:51.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.276][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.278][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:51.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:51.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.283][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:51.285][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:51.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.287][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:51.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:51.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.295][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:51.297][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:51.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.300][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:51.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:51.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.308][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:51.309][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:51.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.312][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.314][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:51.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:51.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.330][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:51.333][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:51.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.336][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.338][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:51.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:51.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.344][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:51.346][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:51.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.349][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.351][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:51.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:51.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.357][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:51.358][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:51.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.361][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.363][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:51.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:51.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.369][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:51.371][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:51.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.374][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.376][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:51.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:51.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.382][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:51.384][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:51.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.387][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.389][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:51.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:51.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.396][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.399][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.408][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:51.409][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:51.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.412][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:51.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:51.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.421][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:51.423][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:51.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.426][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.427][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:51.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:51.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.434][ef$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:51.435][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:51.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.438][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.440][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:51.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:51.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.446][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:51.448][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:51.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.451][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.453][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:51.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:51.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.459][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-12-24 04:55:51.461][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:51.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.464][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.466][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-12-24 04:55:51.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:51.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:51.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:51.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:51.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:51.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:51.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:51.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.548][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:51.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:51.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.554][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:51.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:51.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.560][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:51.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:51.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.566][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:51.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:51.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.572][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:51.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:51.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.578][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:51.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:51.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:51.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:51.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:51.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:51.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:51.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:51.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:51.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:51.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:51.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:51.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:51.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:51.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.620][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:51.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:51.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.626][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:51.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:51.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.632][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:51.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:51.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.637][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:51.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:51.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.643][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:51.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:51.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.649][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:51.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:51.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.655][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:51.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:51.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.661][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:51.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:51.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.667][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:51.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:51.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.673][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:51.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:51.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.679][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:51.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:51.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.685][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:51.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:51.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.691][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:51.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:51.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.697][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:51.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:51.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.703][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:51.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:51.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:51.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:51.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:51.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:51.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:51.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:51.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.744][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:51.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:51.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.750][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:51.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:51.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.756][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:51.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:51.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:51.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:51.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:51.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:51.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:51.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:51.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.786][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:51.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:51.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.792][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:51.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:51.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.798][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:51.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:51.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.804][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:51.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:51.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.810][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:51.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:51.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.815][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:51.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:51.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.821][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:51.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:51.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.827][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:51.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:51.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.833][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:51.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:51.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.839][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:51.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:51.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.845][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:51.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:51.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.851][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:51.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:51.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.857][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-12-24 04:55:51.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.863][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.875][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.881][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-12-24 04:55:51.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:51.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.913][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:51.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:51.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.919][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:51.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:51.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:51.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:51.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.931][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:51.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:51.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.937][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:51.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:51.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.943][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:51.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:51.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.949][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:51.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:51.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:51.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:51.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.961][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:51.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:51.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:51.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:51.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:51.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:51.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:51.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:51.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:51.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:51.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:51.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:51.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:51.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:52.009][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-12-24 04:55:52.012][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-24 04:55:52.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-24 04:55:52.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.018][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-24 04:55:52.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-24 04:55:52.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.025][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-12-24 04:55:52.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-12-24 04:55:52.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.031][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-12-24 04:55:52.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-12-24 04:55:52.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.068][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:52.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:52.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.119][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:52.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:52.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.125][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:52.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:52.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.131][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:52.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:52.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.167][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.168][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.171][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.190][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:52.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:52.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.196][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:52.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:52.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.211][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:52.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:52.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.218][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:52.219][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:52.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.222][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.224][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:52.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:52.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.259][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.261][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.264][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.283][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:52.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:52.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.289][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:52.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:52.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.295][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:52.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:52.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.301][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:52.303][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:52.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.306][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.307][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:52.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:52.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.345][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.346][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.349][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.368][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:52.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:52.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.375][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:52.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:52.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.381][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:52.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:52.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.387][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:52.389][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:52.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.392][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.393][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:52.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:52.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:52.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:52.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.418][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:52.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:52.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:52.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:52.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.437][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:52.439][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:52.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.442][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.443][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:52.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:52.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.461][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:52.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:52.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.468][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:52.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:52.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.475][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:52.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:52.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.481][ef$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:52.483][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:52.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.486][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.488][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:52.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:52.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.506][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:52.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:52.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:52.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:52.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.519][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:52.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:52.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.525][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:52.527][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:52.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.530][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.532][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:52.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:52.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.550][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.557][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.564][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.571][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.573][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.576][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.577][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:52.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:52.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:52.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:52.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:52.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:52.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.612][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:52.614][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:52.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.617][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:52.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:52.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.635][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:52.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:52.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.641][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:52.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:52.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.646][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:52.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:52.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.652][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:52.654][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:52.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.657][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.658][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:52.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:52.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.683][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.690][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.696][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.702][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.704][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.707][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.708][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.725][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:52.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:52.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.732][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:52.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:52.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.738][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:52.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:52.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.744][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:52.745][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:52.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.748][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.750][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:52.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:52.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.768][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:52.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:52.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.774][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:52.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:52.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.781][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:52.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:52.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.786][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:52.788][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:52.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.791][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.792][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:52.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:52.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.809][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:52.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:52.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.814][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:52.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:52.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.820][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:52.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:52.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.826][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:52.827][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:52.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.830][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:52.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:52.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:52.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:52.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:52.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:52.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.859][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:52.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:52.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.864][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:52.866][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:52.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.869][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:52.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:52.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.893][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.899][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.905][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.911][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.912][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.915][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.916][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.933][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:52.935][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:52.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.938][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.945][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.947][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:52.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.949][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.956][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.958][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:52.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.961][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.967][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.969][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:52.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.972][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.978][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.980][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:52.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.983][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:52.990][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.991][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:52.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:52.994][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.001][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.003][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.005][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.012][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:53.014][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:53.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.017][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.023][ef$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:53.025][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:53.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.028][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.034][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:53.036][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:53.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.039][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.045][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:53.047][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:53.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.050][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.057][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.059][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.062][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.068][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.070][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.073][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.080][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.082][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.085][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.092][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:53.093][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:53.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.096][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.111][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.113][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.116][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.122][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.124][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.127][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.133][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:53.135][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:53.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.138][ef$get] fields variable is a list.
biodb.INFO [2024-12-24 04:55:53.148][biodb::testThat]
biodb.INFO [2024-12-24 04:55:53.150][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-12-24 04:55:53.151][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:55:53.152][biodb::testThat]
biodb.DEBUG[2024-12-24 04:55:53.173][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-12-24 04:55:53.182][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-12-24 04:55:53.189][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:53.192][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-12-24 04:55:53.194][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-12-24 04:55:53.196][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-24 04:55:53.200][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-12-24 04:55:53.202][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-12-24 04:55:53.237][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-12-24 04:55:53.239][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-12-24 04:55:53.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:55:53.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:55:53.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:55:53.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:55:53.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:55:53.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:55:53.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-24 04:55:53.260][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.261][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.264][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.272][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.273][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.276][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.278][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.284][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:53.285][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:53.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.288][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.290][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:53.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:53.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.296][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:53.298][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:53.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.300][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.302][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:53.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:53.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.308][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:53.310][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:53.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.321][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:53.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:53.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.329][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:53.331][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:53.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.333][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:53.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:53.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.341][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.343][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.346][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.348][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.363][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.365][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.368][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.371][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.378][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:53.380][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:53.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.383][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.385][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:53.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:53.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.392][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.394][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.397][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.399][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.406][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:53.407][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:53.409][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.410][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.412][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:53.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:53.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.419][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:53.420][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:53.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.423][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:53.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:53.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.432][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.434][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.437][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.446][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.448][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.451][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.459][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:53.461][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:53.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.464][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:53.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:53.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.472][ef$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:53.474][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:53.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.477][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.479][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:53.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:53.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.486][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:53.487][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:53.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.490][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.493][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:53.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:53.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.499][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-12-24 04:55:53.501][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:53.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.504][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.506][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-12-24 04:55:53.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:53.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.532][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:53.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:53.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.539][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:53.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:53.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.545][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:55:53.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:55:53.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.565][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:53.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:53.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.571][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:53.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:53.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.578][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:55:53.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:55:53.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:53.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:53.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:53.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:53.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:55:53.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:55:53.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:53.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:53.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:53.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:53.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:53.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:55:53.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.620][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:53.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:53.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.626][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:53.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:53.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.632][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:53.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:55:53.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.637][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.644][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.649][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:55:53.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.656][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:53.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:53.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.662][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:53.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:53.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.668][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:53.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:55:53.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.674][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:53.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:53.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.680][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:53.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:53.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.686][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:53.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:53.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.692][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:53.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:53.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:53.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:53.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.704][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:55:53.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:55:53.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:53.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:53.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:53.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:53.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:55:53.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:55:53.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.745][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.751][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.757][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:55:53.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:55:53.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.789][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:53.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:53.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.795][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:53.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:53.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.801][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:53.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:53.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.807][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.814][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.820][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:55:53.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.826][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.833][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.839][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:53.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.846][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:53.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:53.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.852][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:53.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:53.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.858][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:55:53.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:55:53.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.864][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-12-24 04:55:53.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.875][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.887][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-12-24 04:55:53.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:55:53.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.894][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:53.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:53.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.900][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:53.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:53.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.906][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:53.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:53.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.911][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:53.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:53.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.917][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:53.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:53.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.923][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:53.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:53.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.929][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:53.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:53.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.941][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:53.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:55:53.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:55:53.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:55:53.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:53.989][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-12-24 04:55:53.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-12-24 04:55:53.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-12-24 04:55:53.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:53.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:53.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-12-24 04:55:53.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-12-24 04:55:53.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-12-24 04:55:54.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-12-24 04:55:54.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-24 04:55:54.017][biodb::testThat]
biodb.INFO [2024-12-24 04:55:54.019][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-12-24 04:55:54.020][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:55:54.022][biodb::testThat]
biodb.TRACE[2024-12-24 04:55:54.026][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.028][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.031][ef$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:54.032][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-12-24 04:55:54.070][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:54.091][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-12-24 04:55:54.093][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-12-24 04:55:54.095][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-12-24 04:55:54.096][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-12-24 04:55:54.098][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.100][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.102][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-12-24 04:55:54.104][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.106][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-12-24 04:55:54.108][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-12-24 04:55:54.109][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-12-24 04:55:54.111][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-12-24 04:55:54.112][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-12-24 04:55:54.114][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-12-24 04:55:54.115][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-12-24 04:55:54.118][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.129][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.135][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:54.141][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-12-24 04:55:54.142][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-12-24 04:55:54.143][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-12-24 04:55:54.159][ef$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:54.161][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:54.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.164][ef$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:54.165][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-12-24 04:55:54.191][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:54.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:54.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.197][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:54.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:54.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.203][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:54.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:54.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:54.213][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[2024-12-24 04:55:54.294][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-12-24 04:55:54.295][private$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[2024-12-24 04:55:54.297][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-12-24 04:55:54.318][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.321][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.323][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-12-24 04:55:54.325][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.326][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-12-24 04:55:54.349][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-12-24 04:55:54.351][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-12-24 04:55:54.352][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-12-24 04:55:54.354][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-12-24 04:55:54.355][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-12-24 04:55:54.357][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-12-24 04:55:54.366][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:54.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:54.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.373][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:54.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:54.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.379][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:54.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:54.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.385][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:55:54.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:55:54.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:54.391][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-12-24 04:55:54.392][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-12-24 04:55:54.393][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-12-24 04:55:54.410][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.412][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.415][ef$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:54.416][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-12-24 04:55:54.433][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.440][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.446][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:54.456][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-12-24 04:55:54.458][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-12-24 04:55:54.460][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-12-24 04:55:54.461][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-12-24 04:55:54.463][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.466][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.468][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-12-24 04:55:54.470][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.471][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-12-24 04:55:54.473][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-12-24 04:55:54.475][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-12-24 04:55:54.476][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-12-24 04:55:54.478][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-12-24 04:55:54.479][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-12-24 04:55:54.480][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-12-24 04:55:54.483][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.489][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.495][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.501][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:55:54.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:54.507][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-12-24 04:55:54.508][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-12-24 04:55:54.510][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-12-24 04:55:54.531][biodb::testThat]
biodb.INFO [2024-12-24 04:55:54.533][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-12-24 04:55:54.534][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:55:54.536][biodb::testThat]
biodb.TRACE[2024-12-24 04:55:54.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:54.591][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-12-24 04:55:54.592][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-12-24 04:55:54.594][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-12-24 04:55:54.596][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.598][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.600][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-12-24 04:55:54.602][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:55:54.604][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-12-24 04:55:54.606][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-12-24 04:55:54.607][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-12-24 04:55:54.609][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-12-24 04:55:54.610][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-12-24 04:55:54.612][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-12-24 04:55:54.613][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-12-24 04:55:54.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.634][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:55:54.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:55:54.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:55:54.640][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-12-24 04:55:54.642][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-12-24 04:55:54.663][biodb::testThat]
biodb.INFO [2024-12-24 04:55:54.665][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-12-24 04:55:54.666][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:55:54.668][biodb::testThat]
biodb.TRACE[2024-12-24 04:55:54.698][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-24 04:55:54.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-24 04:55:54.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.705][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-24 04:55:54.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-24 04:55:54.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.711][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-12-24 04:55:54.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-12-24 04:55:54.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.718][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-12-24 04:55:54.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-12-24 04:55:54.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.794][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-24 04:55:54.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-24 04:55:54.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.800][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-12-24 04:55:54.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-12-24 04:55:54.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.806][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-12-24 04:55:54.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-12-24 04:55:54.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:55:54.812][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-12-24 04:55:54.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-12-24 04:55:54.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:55:54.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-24 04:55:54.826][biodb::testThat]
biodb.INFO [2024-12-24 04:55:54.828][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-12-24 04:55:54.829][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:55:54.831][biodb::testThat]
biodb.INFO [2024-12-24 04:55:54.842][biodb::testThat]
biodb.INFO [2024-12-24 04:55:54.843][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-12-24 04:55:54.845][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:55:54.846][biodb::testThat]
biodb.INFO [2024-12-24 04:55:54.858][biodb::testThat]
biodb.INFO [2024-12-24 04:55:54.859][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-12-24 04:55:54.861][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:55:54.862][biodb::testThat]
biodb.DEBUG[2024-12-24 04:55:54.868][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-12-24 04:55:58.991][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-12-24 04:55:59.520][biodb::testThat]
biodb.INFO [2024-12-24 04:55:59.522][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-12-24 04:55:59.524][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:55:59.526][biodb::testThat]
biodb.DEBUG[2024-12-24 04:56:08.110][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-12-24 04:56:08.634][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:08.636][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:08.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:08.640][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:08.643][ef$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:08.645][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:08.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:08.649][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:08.651][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:08.654][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:08.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:08.658][ef$get] fields variable is a list.
biodb.INFO [2024-12-24 04:56:08.661][biodb::testThat]
biodb.INFO [2024-12-24 04:56:08.663][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-12-24 04:56:08.665][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:56:08.667][biodb::testThat]
biodb.DEBUG[2024-12-24 04:56:08.671][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-12-24 04:56:08.834][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-12-24 04:56:08.838][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:08.841][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-12-24 04:56:08.868][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-12-24 04:56:08.870][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-24 04:56:08.872][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-24 04:56:08.874][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-12-24 04:56:08.876][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:08.879][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-12-24 04:56:08.881][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-12-24 04:56:08.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:56:08.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:08.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:08.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:08.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:08.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:08.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-24 04:56:08.900][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:08.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:08.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:08.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:08.906][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:08.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:08.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:08.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:08.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:08.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:08.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:08.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:08.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:08.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:08.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:08.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:08.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:08.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:08.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:08.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:08.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:08.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:08.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:08.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:08.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:08.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:08.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:08.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:08.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:08.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:08.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:08.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:56:08.948][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-12-24 04:56:08.949][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-12-24 04:56:09.027][biodb::testThat]
biodb.INFO [2024-12-24 04:56:09.029][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-12-24 04:56:09.030][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:56:09.032][biodb::testThat]
biodb.DEBUG[2024-12-24 04:56:09.044][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-12-24 04:56:09.046][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-12-24 04:56:09.047][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-12-24 04:56:09.050][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:09.052][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-12-24 04:56:09.056][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-12-24 04:56:09.058][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-12-24 04:56:09.060][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-12-24 04:56:09.062][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-12-24 04:56:09.064][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:09.066][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-12-24 04:56:09.069][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-12-24 04:56:09.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:56:09.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:09.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:09.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.116][FUN] Functions in observer BiodbConfig: [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[2024-12-24 04:56:09.123][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:09.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:09.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:09.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:09.132][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:09.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:09.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:09.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:09.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:09.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:09.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:09.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:09.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:09.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:09.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:09.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:09.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:09.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:09.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:09.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:09.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:09.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:09.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:09.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:09.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:09.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:09.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:09.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:09.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:09.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:09.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:09.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:56:09.195][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-12-24 04:56:09.197][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-12-24 04:56:09.199][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-12-24 04:56:09.227][biodb::testThat]
biodb.INFO [2024-12-24 04:56:09.229][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-12-24 04:56:09.231][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:56:09.233][biodb::testThat]
biodb.INFO [2024-12-24 04:56:09.331][biodb::testThat]
biodb.INFO [2024-12-24 04:56:09.334][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-12-24 04:56:09.336][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:56:09.338][biodb::testThat]
biodb.DEBUG[2024-12-24 04:56:09.344][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:09.346][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:09.349][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-12-24 04:56:09.352][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:09.354][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-12-24 04:56:09.357][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-12-24 04:56:09.359][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-12-24 04:56:09.361][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-12-24 04:56:09.363][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-12-24 04:56:09.378][biodb::testThat]
biodb.INFO [2024-12-24 04:56:09.380][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-12-24 04:56:09.382][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:56:09.384][biodb::testThat]
biodb.DEBUG[2024-12-24 04:56:09.388][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:09.390][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:09.392][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-12-24 04:56:09.394][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:09.396][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-12-24 04:56:09.397][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-12-24 04:56:09.399][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-12-24 04:56:09.400][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-12-24 04:56:09.402][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-12-24 04:56:09.414][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:09.415][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:09.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:09.418][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:09.420][ef$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:09.421][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:09.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:09.424][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:09.425][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:09.427][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:09.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:09.429][ef$get] fields variable is a list.
biodb.INFO [2024-12-24 04:56:09.431][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-12-24 04:56:09.432][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-12-24 04:56:09.445][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-12-24 04:56:09.446][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-12-24 04:56:09.447][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:09.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:09.450][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.453][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.454][FUN] Functions in observer BiodbConfig: [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 [2024-12-24 04:56:09.459][biodb::testContext]
biodb.INFO [2024-12-24 04:56:09.461][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-24 04:56:09.462][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-12-24 04:56:09.464][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-24 04:56:09.465][biodb::testContext]
biodb.INFO [2024-12-24 04:56:09.470][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2024-12-24 04:56:09.473][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-12-24 04:56:09.478][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-24 04:56:09.479][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-12-24 04:56:09.481][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-12-24 04:56:09.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.486][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-12-24 04:56:09.488][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-12-24 04:56:09.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.502][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-12-24 04:56:09.504][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-12-24 04:56:09.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.509][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-12-24 04:56:09.511][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-12-24 04:56:09.512][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-12-24 04:56:09.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.518][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-12-24 04:56:09.519][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-12-24 04:56:09.521][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-12-24 04:56:09.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.526][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-12-24 04:56:09.527][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-12-24 04:56:09.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.533][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-12-24 04:56:09.534][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-12-24 04:56:09.536][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-12-24 04:56:09.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.541][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-12-24 04:56:09.543][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-12-24 04:56:09.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.548][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-12-24 04:56:09.550][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-12-24 04:56:09.551][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-12-24 04:56:09.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.557][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-12-24 04:56:09.559][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-12-24 04:56:09.560][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-12-24 04:56:09.561][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-12-24 04:56:09.563][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-12-24 04:56:09.564][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-12-24 04:56:09.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.568][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[2024-12-24 04:56:09.570][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-12-24 04:56:09.571][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-12-24 04:56:09.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.576][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-12-24 04:56:09.578][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-12-24 04:56:09.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.582][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[2024-12-24 04:56:09.583][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-12-24 04:56:09.585][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-12-24 04:56:09.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.590][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-12-24 04:56:09.591][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-12-24 04:56:09.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.597][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-12-24 04:56:09.598][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-12-24 04:56:09.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.603][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-12-24 04:56:09.605][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-12-24 04:56:09.610][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-12-24 04:56:09.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.615][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-12-24 04:56:09.616][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-12-24 04:56:09.618][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-12-24 04:56:09.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.624][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-12-24 04:56:09.626][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.628][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-12-24 04:56:09.629][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.631][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:56:09.632][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.634][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.635][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.637][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.638][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-24 04:56:09.640][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:56:09.641][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.643][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-12-24 04:56:09.644][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:56:09.646][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.647][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.649][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-24 04:56:09.649][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-24 04:56:09.649][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-24 04:56:09.649][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-24 04:56:09.649][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-24 04:56:09.651][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:56:09.652][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:09.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:09.655][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:56:09.664][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:09.665][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:09.667][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.668][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.670][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:09.671][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:09.672][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.674][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.675][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-12-24 04:56:09.678][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.679][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-12-24 04:56:09.681][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.682][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:56:09.684][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.685][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.687][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.688][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.690][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-24 04:56:09.691][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:56:09.692][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.694][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-12-24 04:56:09.695][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:56:09.697][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.698][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.700][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-24 04:56:09.700][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-24 04:56:09.700][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-24 04:56:09.700][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-24 04:56:09.700][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-24 04:56:09.701][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:56:09.703][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:09.704][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:09.705][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:56:09.707][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:09.708][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:09.710][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.711][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.712][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:09.714][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:09.715][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.717][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.718][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-12-24 04:56:09.721][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.722][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-12-24 04:56:09.724][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.725][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:56:09.727][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.728][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.730][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.731][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.733][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-24 04:56:09.734][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:56:09.736][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.737][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-12-24 04:56:09.738][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:56:09.740][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.741][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.743][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.744][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:56:09.746][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:09.747][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:09.748][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:56:09.750][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:09.751][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:09.753][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.754][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.755][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:09.757][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:09.758][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.760][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.761][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-12-24 04:56:09.764][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.765][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-12-24 04:56:09.767][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.768][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:56:09.770][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.771][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.773][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.774][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.776][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-24 04:56:09.777][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:56:09.779][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.780][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-12-24 04:56:09.782][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:56:09.783][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.785][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:09.786][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.788][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:56:09.789][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:09.790][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:09.792][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:56:09.793][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:09.795][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:09.796][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:56:09.798][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.799][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:09.800][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:09.802][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:09.803][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:09.805][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-24 04:56:09.806][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.898][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[2024-12-24 04:56:09.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.904][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[2024-12-24 04:56:09.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:09.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.918][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[2024-12-24 04:56:09.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.925][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[2024-12-24 04:56:09.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:09.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:09.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:09.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:09.931][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[2024-12-24 04:56:09.933][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-12-24 04:56:09.935][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-12-24 04:56:09.937][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-12-24 04:56:09.939][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-12-24 04:56:09.941][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-24 04:56:09.943][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-24 04:56:09.945][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-12-24 04:56:09.947][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-12-24 04:56:09.950][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-12-24 04:56:09.952][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-24 04:56:09.954][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-24 04:56:09.956][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-12-24 04:56:09.958][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-12-24 04:56:09.960][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-12-24 04:56:09.962][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-12-24 04:56:09.964][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-24 04:56:09.966][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-12-24 04:56:09.968][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-12-24 04:56:09.970][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-24 04:56:09.972][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-12-24 04:56:09.974][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-12-24 04:56:09.976][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-12-24 04:56:09.978][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-12-24 04:56:09.980][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-12-24 04:56:09.989][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-12-24 04:56:09.992][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-12-24 04:56:09.994][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-12-24 04:56:09.996][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-12-24 04:56:09.998][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-12-24 04:56:10.000][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-12-24 04:56:10.002][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-12-24 04:56:10.004][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-12-24 04:56:10.006][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-12-24 04:56:10.008][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-12-24 04:56:10.010][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-12-24 04:56:10.012][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-12-24 04:56:10.014][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-12-24 04:56:10.016][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-12-24 04:56:10.018][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-12-24 04:56:10.020][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-12-24 04:56:10.022][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-12-24 04:56:10.024][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-12-24 04:56:10.027][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-12-24 04:56:10.029][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-12-24 04:56:10.031][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-12-24 04:56:10.033][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-12-24 04:56:10.035][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-12-24 04:56:10.037][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-12-24 04:56:10.039][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-12-24 04:56:10.041][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-12-24 04:56:10.043][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-12-24 04:56:10.045][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-12-24 04:56:10.047][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-12-24 04:56:10.049][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-12-24 04:56:10.051][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-12-24 04:56:10.053][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-12-24 04:56:10.056][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-12-24 04:56:10.058][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-12-24 04:56:10.060][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-12-24 04:56:10.062][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-12-24 04:56:10.064][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-12-24 04:56:10.066][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-12-24 04:56:10.068][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-12-24 04:56:10.070][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-12-24 04:56:10.072][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-12-24 04:56:10.074][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-12-24 04:56:10.076][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-24 04:56:10.078][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-24 04:56:10.081][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-12-24 04:56:10.083][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-12-24 04:56:10.085][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-12-24 04:56:10.087][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-12-24 04:56:10.089][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-12-24 04:56:10.091][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-12-24 04:56:10.093][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-12-24 04:56:10.095][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-12-24 04:56:10.097][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-12-24 04:56:10.099][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-12-24 04:56:10.101][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-12-24 04:56:10.103][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-12-24 04:56:10.105][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-12-24 04:56:10.107][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-12-24 04:56:10.109][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-12-24 04:56:10.112][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-12-24 04:56:10.114][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2024-12-24 04:56:10.115][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-24 04:56:10.117][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.119][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.176][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[2024-12-24 04:56:10.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.222][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[2024-12-24 04:56:10.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:10.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.279][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[2024-12-24 04:56:10.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:10.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.288][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[2024-12-24 04:56:10.291][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-12-24 04:56:10.293][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:56:10.296][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:10.297][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-12-24 04:56:10.299][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:10.301][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:56:10.302][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:10.311][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-12-24 04:56:10.314][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:10.315][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:56:10.317][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-12-24 04:56:10.319][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:56:10.320][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:10.322][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-12-24 04:56:10.323][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-12-24 04:56:10.325][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-12-24 04:56:10.326][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:10.328][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-24 04:56:10.328][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-12-24 04:56:10.328][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-12-24 04:56:10.329][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-12-24 04:56:10.331][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:10.332][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:10.334][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:56:10.335][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:10.336][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:10.338][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:56:10.339][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-12-24 04:56:10.339][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-12-24 04:56:10.341][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:10.342][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:10.344][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:10.345][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:10.347][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-12-24 04:56:10.349][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-24 04:56:10.352][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-24 04:56:10.354][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-24 04:56:10.357][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-24 04:56:10.362][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:56:10.364][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-12-24 04:56:10.366][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:56:10.368][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-12-24 04:56:10.370][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:56:10.372][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:56:10.374][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-12-24 04:56:10.376][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-12-24 04:56:10.377][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-12-24 04:56:10.377][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-12-24 04:56:10.379][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:10.380][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:10.382][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-12-24 04:56:10.383][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-12-24 04:56:10.385][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:56:10.387][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-12-24 04:56:10.389][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:56:10.390][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:56:10.392][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-12-24 04:56:10.394][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:56:10.396][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-12-24 04:56:10.398][biodb::testThat]
biodb.INFO [2024-12-24 04:56:10.400][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-12-24 04:56:10.401][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:56:10.403][biodb::testThat]
biodb.DEBUG[2024-12-24 04:56:10.408][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:10.411][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:10.413][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-12-24 04:56:10.416][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:10.417][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-12-24 04:56:10.419][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-12-24 04:56:10.421][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-12-24 04:56:10.423][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-12-24 04:56:10.424][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-12-24 04:56:10.429][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-12-24 04:56:10.437][biodb::testThat]
biodb.INFO [2024-12-24 04:56:10.438][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-12-24 04:56:10.440][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:56:10.442][biodb::testThat]
biodb.DEBUG[2024-12-24 04:56:10.444][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-12-24 04:56:10.446][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-12-24 04:56:10.449][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:10.451][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-12-24 04:56:10.455][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-12-24 04:56:10.457][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-24 04:56:10.461][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-12-24 04:56:10.462][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-12-24 04:56:10.465][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-12-24 04:56:10.467][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-12-24 04:56:10.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:56:10.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:10.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:10.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:10.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:10.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:10.485][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.TRACE[2024-12-24 04:56:10.499][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:10.501][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:10.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.505][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:10.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:10.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.520][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:10.522][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:10.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.526][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.528][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:10.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:10.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.536][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:10.538][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:10.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.541][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.544][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:10.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:10.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.551][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:10.553][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:10.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.557][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.560][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:10.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:10.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.568][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:10.570][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:10.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.573][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:10.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:10.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.583][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:10.585][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:10.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.589][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:10.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:10.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:10.601][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:10.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.604][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.607][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:10.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:10.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.614][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:10.616][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:10.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.619][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.621][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:10.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:10.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.628][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:10.630][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:10.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.633][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.635][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:10.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:10.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.642][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:10.644][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:10.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.647][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.649][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:10.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:10.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.656][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:10.658][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:10.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.661][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.664][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:10.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:10.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.671][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:10.672][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:10.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.675][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:10.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:10.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.685][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:10.686][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:10.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.689][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:10.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:10.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.714][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:10.716][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:10.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.719][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:10.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:10.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.728][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:10.729][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:10.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.732][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.734][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:10.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:10.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.741][ef$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:10.742][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:10.744][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.745][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.747][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:10.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:10.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.754][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:10.756][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:10.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.759][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.761][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:10.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:10.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.767][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-12-24 04:56:10.769][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:10.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.772][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.774][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-12-24 04:56:10.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:10.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:10.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:10.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:10.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:10.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:10.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:10.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.801][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:10.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:10.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.807][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:10.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:10.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.813][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:10.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:10.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.819][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:10.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:10.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.825][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:10.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:10.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.831][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:10.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:10.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:10.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:10.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:10.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:10.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:10.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:10.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:10.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:10.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:10.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:10.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:10.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:10.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.877][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:10.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:10.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.892][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:10.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:10.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.898][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:10.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:10.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.903][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:10.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:10.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.909][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:10.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:10.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.915][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:10.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:10.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.921][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:10.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:10.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.926][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:10.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:10.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.932][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:10.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:10.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.938][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:10.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:10.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.943][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:10.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:10.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.949][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:10.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:10.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.955][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:10.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:10.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.961][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:10.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:10.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.966][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:10.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:10.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:10.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:10.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:10.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:10.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:10.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:10.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:10.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:10.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:10.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:10.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:10.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:10.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:11.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:11.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.007][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:11.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:11.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.013][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:11.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:11.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.018][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:11.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:11.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:11.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:11.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:11.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:11.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:11.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:11.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.049][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:11.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:11.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.055][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:11.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:11.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:11.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:11.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.066][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:11.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:11.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.071][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:11.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:11.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.077][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:11.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:11.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.082][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:11.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:11.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.088][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:11.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:11.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.093][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:11.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:11.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.099][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:11.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:11.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.104][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:11.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:11.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.109][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:11.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:11.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.115][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-12-24 04:56:11.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:11.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:11.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:11.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:11.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:11.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:11.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:11.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.137][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-12-24 04:56:11.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:11.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.144][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:11.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:11.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.149][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:11.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:11.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.155][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:11.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:11.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:11.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:11.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.166][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:11.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:11.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.172][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:11.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:11.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.177][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:11.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:11.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:11.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:11.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.196][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:11.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:11.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:11.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:11.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:11.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:11.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:11.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:11.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:11.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:11.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:11.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:11.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:11.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:11.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:56:11.236][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-12-24 04:56:11.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:11.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:11.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:11.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:11.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:11.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:11.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:11.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:11.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-12-24 04:56:11.262][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-12-24 04:56:11.264][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-12-24 04:56:11.266][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-12-24 04:56:11.267][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-12-24 04:56:11.268][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:11.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:11.271][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.273][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-12-24 04:56:11.279][biodb::testContext]
biodb.INFO [2024-12-24 04:56:11.280][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-24 04:56:11.282][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-12-24 04:56:11.283][biodb::testContext] ********************************************************************************
biodb.INFO [2024-12-24 04:56:11.285][biodb::testContext]
biodb.INFO [2024-12-24 04:56:11.289][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2024-12-24 04:56:11.292][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-12-24 04:56:11.297][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-24 04:56:11.298][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-12-24 04:56:11.300][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-12-24 04:56:11.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.305][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-12-24 04:56:11.307][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-12-24 04:56:11.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.312][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-12-24 04:56:11.314][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-12-24 04:56:11.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.319][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-12-24 04:56:11.321][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-12-24 04:56:11.322][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-12-24 04:56:11.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.328][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-12-24 04:56:11.329][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-12-24 04:56:11.330][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-12-24 04:56:11.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.336][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-12-24 04:56:11.337][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-12-24 04:56:11.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.342][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-12-24 04:56:11.344][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-12-24 04:56:11.345][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-12-24 04:56:11.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.359][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-12-24 04:56:11.360][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-12-24 04:56:11.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.365][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-12-24 04:56:11.367][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-12-24 04:56:11.368][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-12-24 04:56:11.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.373][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-12-24 04:56:11.374][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-12-24 04:56:11.376][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-12-24 04:56:11.377][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-12-24 04:56:11.379][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-12-24 04:56:11.380][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-12-24 04:56:11.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.385][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-12-24 04:56:11.386][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-12-24 04:56:11.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.391][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-12-24 04:56:11.393][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-12-24 04:56:11.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.398][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-12-24 04:56:11.399][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-12-24 04:56:11.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.404][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-12-24 04:56:11.406][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-12-24 04:56:11.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.411][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-12-24 04:56:11.412][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-12-24 04:56:11.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.417][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-12-24 04:56:11.419][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-12-24 04:56:11.423][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-12-24 04:56:11.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.429][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-12-24 04:56:11.430][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-12-24 04:56:11.432][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-12-24 04:56:11.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.437][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-12-24 04:56:11.440][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.442][self$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[2024-12-24 04:56:11.443][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.445][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:56:11.446][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.448][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.449][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.451][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.452][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-24 04:56:11.453][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:56:11.455][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.456][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-12-24 04:56:11.458][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:56:11.459][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.461][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.462][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-24 04:56:11.462][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-24 04:56:11.462][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-24 04:56:11.462][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-24 04:56:11.462][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-24 04:56:11.463][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:56:11.465][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:11.466][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:11.467][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:56:11.469][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:11.470][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:11.471][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.473][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.474][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:11.476][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:11.477][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.478][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.480][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-12-24 04:56:11.483][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.484][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-12-24 04:56:11.485][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.487][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:56:11.488][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.490][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.491][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.493][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.494][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-24 04:56:11.495][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:56:11.497][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.498][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-12-24 04:56:11.500][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:56:11.501][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.502][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.511][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-24 04:56:11.511][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-12-24 04:56:11.511][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-12-24 04:56:11.511][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-12-24 04:56:11.511][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-12-24 04:56:11.513][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:56:11.514][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:11.516][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:11.517][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:56:11.519][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:11.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:11.521][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.523][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.524][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:11.525][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:11.527][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.528][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.530][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-12-24 04:56:11.532][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.534][self$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[2024-12-24 04:56:11.535][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.536][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:56:11.538][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.539][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.541][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.542][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.543][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-12-24 04:56:11.545][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:56:11.546][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.548][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-12-24 04:56:11.549][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:56:11.550][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.552][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.553][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.555][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:56:11.556][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:11.557][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:11.559][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:56:11.560][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:11.561][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:11.563][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.564][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.565][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:11.567][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:11.568][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.569][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.571][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-12-24 04:56:11.573][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.575][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-12-24 04:56:11.576][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.578][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:56:11.579][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.580][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.582][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.583][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.585][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-12-24 04:56:11.586][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:56:11.587][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.589][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-12-24 04:56:11.590][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:56:11.592][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.593][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:11.594][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.596][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-12-24 04:56:11.597][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:11.598][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:11.600][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:56:11.601][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:11.602][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:11.604][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:56:11.605][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.606][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:11.608][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:11.609][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:11.610][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:11.612][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-24 04:56:11.613][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.621][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[2024-12-24 04:56:11.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.685][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[2024-12-24 04:56:11.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.703][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[2024-12-24 04:56:11.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.729][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-12-24 04:56:11.731][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-12-24 04:56:11.733][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-12-24 04:56:11.735][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-12-24 04:56:11.736][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-12-24 04:56:11.738][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-24 04:56:11.740][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-12-24 04:56:11.742][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-12-24 04:56:11.744][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-12-24 04:56:11.746][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-24 04:56:11.748][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-24 04:56:11.750][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-12-24 04:56:11.752][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-12-24 04:56:11.754][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-12-24 04:56:11.756][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-12-24 04:56:11.758][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-24 04:56:11.760][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-12-24 04:56:11.762][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-12-24 04:56:11.764][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-12-24 04:56:11.766][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-12-24 04:56:11.768][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-12-24 04:56:11.770][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-12-24 04:56:11.772][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-12-24 04:56:11.774][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-12-24 04:56:11.776][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-12-24 04:56:11.778][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-12-24 04:56:11.780][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-12-24 04:56:11.782][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-12-24 04:56:11.784][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-12-24 04:56:11.786][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-12-24 04:56:11.788][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-12-24 04:56:11.790][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-12-24 04:56:11.792][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-12-24 04:56:11.794][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-12-24 04:56:11.796][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-12-24 04:56:11.798][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-12-24 04:56:11.807][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-12-24 04:56:11.809][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-12-24 04:56:11.812][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-12-24 04:56:11.814][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-12-24 04:56:11.816][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-12-24 04:56:11.818][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-12-24 04:56:11.820][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-12-24 04:56:11.822][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-12-24 04:56:11.824][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-12-24 04:56:11.826][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-12-24 04:56:11.828][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-12-24 04:56:11.830][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-12-24 04:56:11.832][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-12-24 04:56:11.834][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-12-24 04:56:11.836][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-12-24 04:56:11.838][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-12-24 04:56:11.840][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-12-24 04:56:11.842][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-12-24 04:56:11.844][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-12-24 04:56:11.846][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-12-24 04:56:11.848][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-12-24 04:56:11.850][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-12-24 04:56:11.853][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-12-24 04:56:11.855][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-12-24 04:56:11.857][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-12-24 04:56:11.859][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-12-24 04:56:11.861][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-12-24 04:56:11.863][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-12-24 04:56:11.865][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-12-24 04:56:11.867][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-12-24 04:56:11.869][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-12-24 04:56:11.871][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-12-24 04:56:11.873][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-12-24 04:56:11.875][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-12-24 04:56:11.877][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-12-24 04:56:11.879][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-12-24 04:56:11.881][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-12-24 04:56:11.883][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-12-24 04:56:11.885][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-12-24 04:56:11.887][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-12-24 04:56:11.889][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-12-24 04:56:11.891][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-12-24 04:56:11.893][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-12-24 04:56:11.895][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-12-24 04:56:11.897][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-12-24 04:56:11.899][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-12-24 04:56:11.901][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-12-24 04:56:11.904][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-12-24 04:56:11.906][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2024-12-24 04:56:11.907][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-12-24 04:56:11.909][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.911][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:11.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:11.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.922][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[2024-12-24 04:56:11.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:11.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:11.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.931][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[2024-12-24 04:56:11.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:11.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:11.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.940][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[2024-12-24 04:56:11.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:11.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:11.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:11.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:11.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:11.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:11.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:11.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:11.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.983][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[2024-12-24 04:56:11.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:11.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:11.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:11.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:11.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:11.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:11.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:11.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:11.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:11.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:12.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:12.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:12.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:12.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:12.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:12.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:12.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:12.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:12.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:12.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:12.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:12.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:12.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:12.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:12.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:12.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:12.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:12.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:12.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:12.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:12.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:12.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:12.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:12.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:12.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:12.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:12.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:12.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:12.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:12.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:12.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:12.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:12.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:12.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:12.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:12.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:12.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:12.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:12.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:12.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:12.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:12.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:12.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:12.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:12.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:12.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:12.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:12.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:12.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:12.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:12.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-12-24 04:56:12.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:12.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:12.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:12.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:12.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:12.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:12.074][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-12-24 04:56:12.076][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:56:12.079][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:12.080][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-12-24 04:56:12.082][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:12.083][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-12-24 04:56:12.084][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:12.086][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-12-24 04:56:12.087][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:12.089][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-12-24 04:56:12.090][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-12-24 04:56:12.092][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-12-24 04:56:12.093][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:12.095][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-12-24 04:56:12.096][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-12-24 04:56:12.098][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-12-24 04:56:12.099][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-12-24 04:56:12.109][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-12-24 04:56:12.109][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-12-24 04:56:12.109][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-12-24 04:56:12.111][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-12-24 04:56:12.112][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:12.113][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:12.115][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-12-24 04:56:12.116][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-12-24 04:56:12.118][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-12-24 04:56:12.119][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-12-24 04:56:12.120][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-12-24 04:56:12.120][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-12-24 04:56:12.122][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:12.123][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:12.124][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-12-24 04:56:12.126][self$setPropertyValue]
biodb.DEBUG[2024-12-24 04:56:12.128][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-12-24 04:56:12.130][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-12-24 04:56:12.132][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-12-24 04:56:12.134][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-12-24 04:56:12.137][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-12-24 04:56:12.141][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:56:12.143][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-12-24 04:56:12.145][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:56:12.147][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-12-24 04:56:12.149][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:56:12.150][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:56:12.152][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-12-24 04:56:12.154][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-12-24 04:56:12.155][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-12-24 04:56:12.155][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-12-24 04:56:12.157][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-12-24 04:56:12.158][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-12-24 04:56:12.159][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-12-24 04:56:12.161][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-12-24 04:56:12.162][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-12-24 04:56:12.165][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-12-24 04:56:12.166][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:56:12.168][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:56:12.170][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-12-24 04:56:12.172][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-12-24 04:56:12.173][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-12-24 04:56:12.175][biodb::testThat]
biodb.INFO [2024-12-24 04:56:12.177][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-12-24 04:56:12.178][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-12-24 04:56:12.179][biodb::testThat]
biodb.DEBUG[2024-12-24 04:56:12.182][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-12-24 04:56:12.184][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-12-24 04:56:12.185][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-12-24 04:56:12.189][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:12.191][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:12.193][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-12-24 04:56:12.195][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:12.196][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-12-24 04:56:12.198][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-12-24 04:56:12.200][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-12-24 04:56:12.201][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-12-24 04:56:12.202][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-12-24 04:56:12.204][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-12-24 04:56:12.205][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-12-24 04:56:12.208][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-12-24 04:56:12.209][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-12-24 04:56:12.212][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:12.214][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-12-24 04:56:12.217][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-12-24 04:56:12.218][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-24 04:56:12.221][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-12-24 04:56:12.223][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-12-24 04:56:12.224][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-12-24 04:56:12.226][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-12-24 04:56:12.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:56:12.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:12.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:12.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:12.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:12.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:12.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-24 04:56:12.247][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.248][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.251][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.258][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:12.260][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:12.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.271][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.273][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:12.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:12.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.279][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:12.280][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:12.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.283][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.285][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:12.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:12.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.291][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:12.292][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:12.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.295][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.297][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:12.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:12.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.303][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:12.304][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:12.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.307][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:12.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:12.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.315][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:12.316][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:12.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.319][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:12.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:12.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.326][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:12.328][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:12.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.331][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.333][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:12.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:12.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.338][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:12.340][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:12.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.343][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.351][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:12.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:12.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.358][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:12.359][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:12.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.362][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.364][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:12.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:12.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.371][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:12.372][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:12.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.375][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.378][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:12.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:12.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.384][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:12.386][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:12.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.389][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.390][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:12.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:12.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.397][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:12.398][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:12.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.401][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.404][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:12.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:12.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.410][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.412][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.414][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.417][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.423][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:12.425][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:12.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.427][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:12.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:12.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.452][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:12.454][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:12.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.457][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:12.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:12.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.465][ef$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:12.466][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:12.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.469][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.471][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:12.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:12.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.477][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:12.478][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:12.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.481][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.484][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:12.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:12.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.490][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-12-24 04:56:12.492][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:12.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.495][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.497][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-12-24 04:56:12.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:12.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.522][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:12.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:12.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.528][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:12.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:12.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.534][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:12.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:12.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.540][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:12.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:12.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.545][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:12.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:12.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.551][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:12.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:12.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:12.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:12.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:12.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:12.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:12.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:12.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:12.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:12.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:12.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:12.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:12.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:12.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.591][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:12.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:12.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.610][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:12.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:12.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.619][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:12.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:12.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.625][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:12.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:12.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.632][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:12.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:12.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.638][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:12.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:12.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.644][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:12.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:12.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.649][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:12.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:12.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.655][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:12.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:12.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.661][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:12.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:12.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.667][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:12.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:12.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.673][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:12.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:12.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.679][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:12.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:12.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:12.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:12.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.691][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:12.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:12.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:12.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:12.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.702][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:12.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:12.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:12.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:12.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.732][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:12.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:12.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.738][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:12.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:12.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.744][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:12.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:12.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:12.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:12.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:12.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:12.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:12.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:12.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:12.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:12.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.781][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:12.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:12.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.787][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:12.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:12.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.793][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:12.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:12.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.799][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:12.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:12.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.805][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:12.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:12.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.811][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:12.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:12.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.817][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:12.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:12.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.823][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:12.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:12.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.828][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:12.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:12.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.834][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:12.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:12.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.840][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:12.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:12.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.846][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-12-24 04:56:12.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.863][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.869][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-12-24 04:56:12.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:12.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:12.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:12.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.882][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:12.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:12.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:12.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:12.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.894][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:12.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:12.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.900][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:12.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:12.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.906][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:12.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:12.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.912][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:12.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:12.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.923][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:12.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:12.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:12.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:12.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:56:12.973][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-12-24 04:56:12.974][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:12.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:12.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.980][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:12.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:12.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.986][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:12.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:12.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:12.992][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:12.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:12.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:12.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:56:12.998][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-12-24 04:56:12.999][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-12-24 04:56:13.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:56:13.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:13.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:13.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:13.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:13.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:13.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:13.016][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-12-24 04:56:13.018][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-12-24 04:56:13.020][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:13.022][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-12-24 04:56:13.025][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-12-24 04:56:13.027][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-12-24 04:56:13.029][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-12-24 04:56:13.030][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-12-24 04:56:13.032][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-12-24 04:56:13.034][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-12-24 04:56:13.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:56:13.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:13.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:13.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:13.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:13.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:13.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-24 04:56:13.054][ef$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.056][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.058][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.066][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:13.068][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:13.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.070][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.072][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:13.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:13.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.078][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:13.080][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:13.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.082][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.084][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:13.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:13.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.090][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:13.092][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:13.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.102][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.105][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:13.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:13.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.111][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:13.113][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:13.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.116][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:13.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:13.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.124][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:13.125][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:13.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.128][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:13.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:13.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.136][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:13.138][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:13.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.140][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.143][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:13.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:13.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.149][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:13.150][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:13.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.153][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.155][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:13.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:13.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.161][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:13.163][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:13.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.166][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.168][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:13.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:13.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.174][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:13.176][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:13.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.178][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.181][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:13.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:13.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.187][ef$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:13.188][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:13.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.191][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.193][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:13.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:13.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.199][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:13.201][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:13.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.204][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:13.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:13.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.214][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.217][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.225][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:13.226][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:13.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.229][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:13.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:13.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.238][ef$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:13.239][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:13.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.242][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:13.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:13.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.250][ef$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.252][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.254][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.256][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.263][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:13.272][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:13.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.276][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:13.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:13.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.285][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-12-24 04:56:13.287][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:13.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.290][ef$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.292][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-12-24 04:56:13.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:13.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.316][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:13.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:13.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.322][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:13.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:13.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.328][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-12-24 04:56:13.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-12-24 04:56:13.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.334][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:13.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:13.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.340][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:13.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:13.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.346][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-12-24 04:56:13.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-12-24 04:56:13.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:13.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:13.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:13.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:13.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-12-24 04:56:13.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-12-24 04:56:13.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:13.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:13.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:13.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:13.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:13.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-12-24 04:56:13.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.388][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:13.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:13.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.395][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:13.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:13.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.401][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:13.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-12-24 04:56:13.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.407][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:13.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:13.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.413][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:13.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:13.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.420][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:13.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-12-24 04:56:13.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.426][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:13.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:13.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.433][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:13.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:13.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.448][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:13.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-12-24 04:56:13.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.456][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.462][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.469][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.475][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:13.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:13.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.481][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:13.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:13.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.488][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-12-24 04:56:13.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-12-24 04:56:13.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:13.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:13.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:13.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:13.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-12-24 04:56:13.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-12-24 04:56:13.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.523][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.529][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:13.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:13.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.534][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:13.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:13.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.540][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:13.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-12-24 04:56:13.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:13.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:13.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:13.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:13.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:13.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-12-24 04:56:13.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:13.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:13.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.570][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:13.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:13.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.575][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:13.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:13.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.582][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:13.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:13.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.588][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:13.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:13.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.594][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:13.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-12-24 04:56:13.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.602][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:13.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:13.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.616][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:13.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:13.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.622][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:13.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-12-24 04:56:13.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.628][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:13.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:13.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.633][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:13.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:13.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.639][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-12-24 04:56:13.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-12-24 04:56:13.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.644][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-12-24 04:56:13.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.661][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.667][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-12-24 04:56:13.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-12-24 04:56:13.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:13.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:13.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.680][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:13.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:13.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:13.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:13.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:13.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:13.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.697][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-12-24 04:56:13.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-12-24 04:56:13.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.703][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:13.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:13.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.709][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:13.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:13.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.721][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:13.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-12-24 04:56:13.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-12-24 04:56:13.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-12-24 04:56:13.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:56:13.772][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-12-24 04:56:13.774][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.781][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.788][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.794][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:56:13.800][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-12-24 04:56:13.801][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-12-24 04:56:13.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:56:13.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:13.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:13.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:13.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:13.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:13.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:13.824][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-12-24 04:56:13.826][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-12-24 04:56:13.827][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-12-24 04:56:13.829][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:13.831][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:13.833][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-12-24 04:56:13.835][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:13.837][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-12-24 04:56:13.838][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-12-24 04:56:13.840][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-12-24 04:56:13.841][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-12-24 04:56:13.843][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-12-24 04:56:13.844][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-12-24 04:56:13.845][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-12-24 04:56:13.848][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.854][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.859][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.865][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.871][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.876][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.882][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:56:13.888][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-12-24 04:56:13.889][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-12-24 04:56:13.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:56:13.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:13.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:13.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:13.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:13.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:13.903][FUN] Functions in observer BiodbConfig: [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[2024-12-24 04:56:13.905][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.911][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.916][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.922][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.936][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.942][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:13.948][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:13.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:13.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:13.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:56:13.954][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-12-24 04:56:13.955][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-12-24 04:56:13.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:56:13.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:13.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:13.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:13.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:13.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:13.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-12-24 04:56:13.976][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-12-24 04:56:13.978][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-12-24 04:56:13.979][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-12-24 04:56:13.981][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:13.984][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:13.985][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-12-24 04:56:13.987][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-12-24 04:56:13.989][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-12-24 04:56:13.991][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-12-24 04:56:13.992][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-12-24 04:56:13.993][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-12-24 04:56:13.995][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-12-24 04:56:13.996][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-12-24 04:56:13.997][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-12-24 04:56:14.000][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.006][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.011][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.017][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.022][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.028][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.034][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:56:14.039][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-12-24 04:56:14.041][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-12-24 04:56:14.042][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:56:14.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:14.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:14.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:14.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:14.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:14.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-12-24 04:56:14.056][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.062][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.067][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.073][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.078][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.092][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-12-24 04:56:14.098][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-12-24 04:56:14.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-12-24 04:56:14.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-12-24 04:56:14.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-12-24 04:56:14.104][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-12-24 04:56:14.105][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-12-24 04:56:14.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-12-24 04:56:14.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:14.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:14.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:14.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:14.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:14.120][FUN] Functions in observer BiodbConfig: [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 [2024-12-24 04:56:14.129][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-12-24 04:56:14.131][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-12-24 04:56:14.133][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-12-24 04:56:14.134][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-12-24 04:56:14.135][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-12-24 04:56:14.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-12-24 04:56:14.138][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-12-24 04:56:14.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-12-24 04:56:14.140][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-12-24 04:56:14.141][FUN] Functions in observer 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
12.926 0.637 27.058